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as t}from"./n_FTHU6g.js";const f=["id"],l=["href"],k=i({__name:"ProseH2",props:{id:{}},setup(r){const a=r,{headings:o}=c().public.mdc,d=p(()=>{var e;return a.id&&((e=o==null?void 0:o.anchorLinks)==null?void 0:e.h2)});return(e,m)=>(s(),n("h2",{id:e.id},[e.id&&u(d)?(s(),n("a",{key:0,href:`#${e.id}`},[t(e.$slots,"default")],8,l)):t(e.$slots,"default",{key:1})],8,f))}});export{k as default}; diff --git a/_nuxt/CnYYFQnm.js b/_nuxt/CnYYFQnm.js new file mode 100644 index 000000000..eec86219d --- /dev/null +++ b/_nuxt/CnYYFQnm.js @@ -0,0 +1 @@ +import{_ as m}from"./CFi0eCSz.js";import"./n_FTHU6g.js";export{m as default}; diff --git a/_nuxt/D_fNfRWU.js b/_nuxt/CsszRFVo.js similarity index 72% rename from _nuxt/D_fNfRWU.js rename to _nuxt/CsszRFVo.js index b623a27c2..896b66e63 100644 --- a/_nuxt/D_fNfRWU.js +++ b/_nuxt/CsszRFVo.js @@ -1 +1 @@ -import{h as o,I as s,o as n,c as r,d as e,v as a,a as t}from"./M6HZ8Utv.js";const c={key:0},i=t("code",null,"script",-1),d=t("code",null,"ProseScript",-1),f=o({__name:"ProseScript",props:{src:{type:String,default:""}},setup(l){return(_,m)=>s(!1)?(n(),r("div",c,[e(" Rendering the "),i,e(" element is dangerous and is disabled by default. Consider implementing your own "),d,e(" element to have control over script rendering. ")])):a("",!0)}});export{f as default}; +import{h as o,I as s,o as n,c as r,d as e,v as a,a as t}from"./n_FTHU6g.js";const c={key:0},i=t("code",null,"script",-1),d=t("code",null,"ProseScript",-1),f=o({__name:"ProseScript",props:{src:{type:String,default:""}},setup(l){return(_,m)=>s(!1)?(n(),r("div",c,[e(" Rendering the "),i,e(" element is dangerous and is disabled by default. Consider implementing your own "),d,e(" element to have control over script rendering. 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as A}from"./n_FTHU6g.js";import{h as O}from"./IShi1APO.js";import"./B54u56LZ.js";const Q=C({name:"ContentQuery",props:{path:{type:String,required:!1,default:void 0},only:{type:Array,required:!1,default:void 0},without:{type:Array,required:!1,default:void 0},where:{type:Object,required:!1,default:void 0},sort:{type:Object,required:!1,default:void 0},limit:{type:Number,required:!1,default:void 0},skip:{type:Number,required:!1,default:void 0},locale:{type:String,required:!1,default:void 0},find:{type:String,required:!1,default:void 0}},async setup(a){const{path:t,only:r,without:o,where:u,sort:f,limit:l,skip:d,locale:s,find:h}=S(a),y=b(()=>{var e;return(e=t.value)==null?void 0:e.includes("/_")}),p=!N().public.content.experimental.advanceQuery;_(()=>a,()=>n(),{deep:!0});const i=e=>p?e!=null&&e.surround?e.surround:e!=null&&e._id||Array.isArray(e)?e:e==null?void 0:e.result:e.result,{data:v,refresh:n}=await g(`content-query-${O(a)}`,()=>{let e;return 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null}',tool_version:"2.0.0+galaxy1",type:"tool",uuid:"c1f844d8-487d-4060-beec-1c283abebd2a",when:null,workflow_outputs:[{label:"Human Proteins Volcano Plot",output_name:"out_group_volcano_plot",uuid:"3eb72696-b370-4407-a221-f35a74ab6aff"},{label:"Human Proteins Comparison Plot",output_name:"out_group_comp_plot",uuid:"88fd3bd3-70ce-486e-8cee-361cb9a61bda"}]}},tags:["name:clinicalMP"],uuid:"3a5d60ec-2b30-47cf-a351-7b85df8af9e3",version:4},readme:`# Clinical Metaproteomics 5: Data Interpretation Data interpretation can provide meaningful insights about quantitative proteomic data. Here, MaxQuant data will be interpreted using MSstats by applying a rigorous statistical framework to understand data distribution and variability. Systematic variations are accounted for using subsequent normalization. Users can define the experimental design used by MSstats, such as sample groups and conditions, to perform statistical analysis. The MSstats output provides valuable information about differential protein expression across various conditions, estimates of fold changes, and associated p-values, which aids in the identification of biologically significant proteins. Furthermore, MSstats enables quality control and data visualization, enhancing our ability to draw meaningful conclusions from large-scale proteomic datasets and expands our understanding of complex biological processes. In this current workflow, we perform taxonomic and functional annotations using Unipept and statistical analysis using MSstatsTMT. A GTN has been developed for this workflow. @@ -2378,7 +2378,7 @@ Here is a generated example to highlight the strategy: ## [0.1] 2022-10-18 First release. -`,trsID:"#workflow/github.com/iwc-workflows/chipseq-sr/main",tests:[{doc:"Test outline for ChIPseq_SR",job:{"SR fastq input":{class:"Collection",collection_type:"list",elements:[{identifier:"wt_H3K4me3",class:"File",location:"https://zenodo.org/record/1324070/files/wt_H3K4me3_read1.fastq.gz",filetype:"fastqsanger"}]},adapter_forward:"GATCGGAAGAGCACACGTCTGAACTCCAGTCAC",reference_genome:"mm10",effective_genome_size:187e7,normalize_profile:!0},outputs:{"MultiQC webpage":{asserts:[{that:"has_text",text:"wt_H3K4me3"},{that:"has_text",text:'Filtered Reads'},{that:"has_text",text:'Bowtie 2 / HiSAT2'}]},"MultiQC on input dataset(s): Stats":{asserts:{has_line:{line:"Sample MACS2_mqc_generalstats_macs2_d MACS2_mqc_generalstats_macs2_treatment_redundant_rate MACS2_mqc_generalstats_macs2_peak_count Bowtie 2 / HiSAT2_mqc_generalstats_bowtie_2_hisat2_overall_alignment_rate Cutadapt_mqc_generalstats_cutadapt_percent_trimmed"},has_text_matching:{expression:"wt_H3K4me3 200.0 0.0 4 98.[0-9]* 4.6[0-9]*"}}},"filtered BAM":{element_tests:{wt_H3K4me3:{asserts:{has_size:{value:2547967,delta:2e5}}}}},"MACS2 summits":{element_tests:{wt_H3K4me3:{asserts:{has_n_lines:{n:4}}}}},"MACS2 peaks":{element_tests:{wt_H3K4me3:{asserts:[{that:"has_text",text:"# effective genome size = 1.87e+09"},{that:"has_text",text:"# d = 200"},{that:"has_text",text:"# tags after filtering in treatment: 44038"}]}}},"MACS2 narrowPeak":{element_tests:{wt_H3K4me3:{asserts:{has_n_lines:{n:4}}}}},"MACS2 report":{element_tests:{wt_H3K4me3:{asserts:[{that:"has_text",text:"# effective genome size = 1.87e+09"},{that:"has_text",text:"# d = 200"},{that:"has_text",text:"# tags after filtering in treatment: 44038"}]}}},"coverage from MACS2":{element_tests:{wt_H3K4me3:{asserts:{has_size:{value:559925,delta:1e4}}}}},"mapping stats":{element_tests:{wt_H3K4me3:{asserts:[{that:"has_text",text:"49251 reads; of these:"},{that:"has_text",text:"43525 (88.37%) aligned exactly 1 time"},{that:"has_text",text:"98.37% overall alignment rate"}]}}}}}]}],path:"./workflows/epigenetics/chipseq-sr"},{version:1.2,workflows:[{name:"main",subclass:"Galaxy",publish:!0,primaryDescriptorPath:"/atacseq.ga",testParameterFiles:["/atacseq-tests.yml"],authors:[{name:"Lucille Delisle",orcid:"0000-0002-1964-4960"}],definition:{a_galaxy_workflow:"true",annotation:"This workflow takes as input a collection of paired fastq. 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"ConnectedValue"}}}, {"__index__": 5, "software_cond": {"software": "macs2", "__current_case__": 16, "input": {"__class__": "ConnectedValue"}}}, {"__index__": 6, "software_cond": {"software": "custom_content", "__current_case__": 32, "plot_type": "bargraph", "section_name": "Reads in peaks", "title": "Number of reads in peaks", "description": "Number of reads falling 500bp from a summit", "xlab": "", "ylab": "", "input": {"__class__": "ConnectedValue"}}}], "saveLog": "false", "title": "", "__page__": null, "__rerun_remap_job_id__": null}',tool_version:"1.24.1+galaxy0",type:"tool",uuid:"112d720f-c747-4c92-985f-ebdb52086cc9",when:null,workflow_outputs:[{label:"MultiQC webpage",output_name:"html_report",uuid:"c22aafb2-d9f2-43c3-a6c4-cfe4a3166c07"},{label:"MultiQC on input dataset(s): Stats",output_name:"stats",uuid:"6071150d-48db-4cf8-bfed-2cbdb2635856"}]}},tags:["ATACseq"],uuid:"747f2432-7493-44b8-a5ee-82d104407cad",version:1},readme:`# ATACseq Workflow This workflow is highly concordant with the corresponding training material. You can have more information about ATAC-seq analysis in the [slides](https://training.galaxyproject.org/training-material/topics/epigenetics/tutorials/atac-seq/slides.html) and the [tutorial](https://training.galaxyproject.org/training-material/topics/epigenetics/tutorials/atac-seq/tutorial.html). @@ -2414,7 +2414,7 @@ You can have more information about ATAC-seq analysis in the [slides](https://tr ### Warning - The \`reference_genome\` parameter value is used to select references in bowtie2 and bedtools slopbed. Only references that are present in bowtie2 **and** bedtools slopbed are selectable. If your favorite reference genome is not available ask your administrator to make sure that each bowtie2 reference has a corresponding len file for use in bedtools slopbed. -`,changelog:"# Changelog\n\n## [0.17] 2024-09-23\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.20+galaxy3`\n- `toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/2.0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/2.1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.24.1+galaxy0`\n\n### Manual update\n- Add a step to remove comments lines from histogram to be compatible with new multiQC version\n\n## [0.16] 2024-07-15\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy0`\n\n## [0.15] 2024-05-27\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.30.0+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.31.1+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.30.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.31.1+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_mergebed/2.30.0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_mergebed/2.31.1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.31.1+galaxy0`\n\n## [0.14] 2024-04-22\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.7+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy0`\n\n## [0.13] 2024-04-08\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy1`\n\n## [0.12] 2024-03-25\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.6+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.7+galaxy0`\n\n## [0.11] 2024-03-18\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy2`\n\n## [0.10] 2024-03-14\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.4+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.6+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.4` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.5`\n- `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.4` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/3.1.1.0`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/1.1.2` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy2`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/1.1.1` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0`\n\n## [0.9] 2023-10-23\n\nFix the normalization factor. It was coverage per reads and per reads in peaks instead of per million reads and per million reads in peaks.\n\n## [0.8] 2023-10-19\n\nFix the remove duplicate step!\nIn all previous versions, due to an error, PCR duplicates were not removed.\n\n## [0.7] 2023-10-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.2.7.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.2.9.1+galaxy0`\n\n## [0.6] 2023-09-27\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.2+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.4+galaxy0`\n\n## [0.5.1] 2023-09-22\n\nFix bug in normalize profiles when used with multiple samples (in 0.5.0 it is averaging samples instead of normalizing each sample).\n\n## [0.5] 2023-03-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.3` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.4`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.4+galaxy0`\n\n### Manual update\n- add normalization steps for coverage\n\n## [0.4] 2023-01-16\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy1`\n\n## [0.3] 2022-12-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy1`\n\n## [0.2] 2022-11-28\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.4.5+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.0+galaxy0`\n\n## [0.1] 2022-10-12\nFirst release.\n",trsID:"#workflow/github.com/iwc-workflows/atacseq/main",tests:[{doc:"Test outline for ATACseq",job:{"PE fastq input":{class:"Collection",collection_type:"list:paired",elements:[{class:"Collection",type:"paired",identifier:"SRR891268_chr22_enriched",elements:[{identifier:"forward",class:"File",location:"https://zenodo.org/record/3862793/files/SRR891268_chr22_enriched_R1.fastq.gz",filetype:"fastqsanger"},{identifier:"reverse",class:"File",location:"https://zenodo.org/record/3862793/files/SRR891268_chr22_enriched_R2.fastq.gz",filetype:"fastqsanger"}]}]},reference_genome:"hg19",effective_genome_size:27e8,bin_size:1e3},outputs:{"mapping stats":{element_tests:{SRR891268_chr22_enriched:{asserts:[{that:"has_text",text:"30410 (10.82%) aligned concordantly 0 times"},{that:"has_text",text:"109333 (38.91%) aligned concordantly exactly 1 time"},{that:"has_text",text:"141221 (50.26%) aligned concordantly >1 times"}]}}},"MarkDuplicates metrics":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_text:{text:"0.02"}}}}},"BAM filtered rmDup":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:14134105,delta:1e6}}}}},"histogram of fragment length":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:47718,delta:4e3}}}}},"MACS2 narrowPeak":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_n_lines:{n:223}}}}},"MACS2 report":{element_tests:{SRR891268_chr22_enriched:{asserts:[{that:"has_text",text:"# tag size is determined as 47 bps"},{that:"has_text",text:"# total tags in treatment: 232804"}]}}},"Coverage from MACS2 (bigwig)":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:2594908,delta:2e5}}}}},"1kb around summits":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_n_lines:{n:211}}}}},"Nb of reads in summits +-500bp":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_line:{line:"8698"}}}}},bigwig_norm:{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:1130014,delta:1e5}}}}},bigwig_norm2:{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:1133795,delta:1e5}}}}},"MultiQC on input dataset(s): Stats":{asserts:{has_line:{line:"Sample MACS2_mqc_generalstats_macs2_d MACS2_mqc_generalstats_macs2_peak_count Picard: Mark Duplicates_mqc_generalstats_picard_mark_duplicates_PERCENT_DUPLICATION Bowtie 2 / HiSAT2_mqc_generalstats_bowtie_2_hisat2_overall_alignment_rate Cutadapt_mqc_generalstats_cutadapt_percent_trimmed"},has_text_matching:{expression:"SRR891268_chr22_enriched 200.0 223 2.8[0-9]* 98.[0-9]* 4.7[0-9]*"}}},"MultiQC webpage":{asserts:[{that:"has_text",text:'Filtered Reads'},{that:"has_text",text:"% Aligned"},{that:"has_text",text:"% BP Trimmed"}]}}}]}],path:"./workflows/epigenetics/atacseq"},{version:1.2,workflows:[{name:"main",subclass:"Galaxy",publish:!0,primaryDescriptorPath:"/cutandrun.ga",testParameterFiles:["/cutandrun-tests.yml"],authors:[{name:"Lucille Delisle",orcid:"0000-0002-1964-4960"}],definition:{a_galaxy_workflow:"true",annotation:'This workflow take as input a collection of paired fastq. Remove adapters with cutadapt, map pairs with bowtie2 allowing dovetail. Keep MAPQ30 and concordant pairs. BAM to BED. MACS2 with "ATAC" parameters.',creator:[{class:"Person",identifier:"https://orcid.org/0000-0002-1964-4960",name:"Lucille Delisle"}],"format-version":"0.1",license:"MIT",release:"0.13",name:"CUTandRUN",steps:{0:{annotation:"Should be a paired collection with CUT and RUN fastqs",content_id:null,errors:null,id:0,input_connections:{},inputs:[{description:"Should be a paired collection with CUT and RUN fastqs",name:"PE fastq input"}],label:"PE fastq input",name:"Input dataset collection",outputs:[],position:{left:0,top:268},tool_id:null,tool_state:'{"optional": false, "tag": "", "collection_type": "list:paired"}',tool_version:null,type:"data_collection_input",uuid:"9fbb875d-05b1-4557-bd2e-710f80dd1a21",when:null,workflow_outputs:[]},1:{annotation:"Please use: For R1: - For TrueSeq (CUT and RUN): GATCGGAAGAGCACACGTCTGAACTCCAGTCAC or AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC - For Nextera (CUT and TAG): CTGTCTCTTATACACATCTCCGAGCCCACGAGAC 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Bowtie2 has been adjusted and is now running with these options: allow dovetail and fragment length up to 1kb.\n\n## [0.17] 2024-09-23\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.20+galaxy3`\n- `toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/2.0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/2.1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.24.1+galaxy0`\n\n### Manual update\n- Add a step to remove comments lines from histogram to be compatible with new multiQC version\n\n## [0.16] 2024-07-15\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy0`\n\n## [0.15] 2024-05-27\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.30.0+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.31.1+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.30.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.31.1+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_mergebed/2.30.0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_mergebed/2.31.1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.31.1+galaxy0`\n\n## [0.14] 2024-04-22\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.7+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy0`\n\n## [0.13] 2024-04-08\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy1`\n\n## [0.12] 2024-03-25\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.6+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.7+galaxy0`\n\n## [0.11] 2024-03-18\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy2`\n\n## [0.10] 2024-03-14\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.4+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.6+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.4` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.5`\n- `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.4` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/3.1.1.0`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/1.1.2` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy2`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/1.1.1` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0`\n\n## [0.9] 2023-10-23\n\nFix the normalization factor. It was coverage per reads and per reads in peaks instead of per million reads and per million reads in peaks.\n\n## [0.8] 2023-10-19\n\nFix the remove duplicate step!\nIn all previous versions, due to an error, PCR duplicates were not removed.\n\n## [0.7] 2023-10-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.2.7.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.2.9.1+galaxy0`\n\n## [0.6] 2023-09-27\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.2+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.4+galaxy0`\n\n## [0.5.1] 2023-09-22\n\nFix bug in normalize profiles when used with multiple samples (in 0.5.0 it is averaging samples instead of normalizing each sample).\n\n## [0.5] 2023-03-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.3` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.4`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.4+galaxy0`\n\n### Manual update\n- add normalization steps for coverage\n\n## [0.4] 2023-01-16\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy1`\n\n## [0.3] 2022-12-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy1`\n\n## [0.2] 2022-11-28\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.4.5+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.0+galaxy0`\n\n## [0.1] 2022-10-12\nFirst release.\n",trsID:"#workflow/github.com/iwc-workflows/atacseq/main",tests:[{doc:"Test outline for ATACseq",job:{"PE fastq input":{class:"Collection",collection_type:"list:paired",elements:[{class:"Collection",type:"paired",identifier:"SRR891268_chr22_enriched",elements:[{identifier:"forward",class:"File",location:"https://zenodo.org/record/3862793/files/SRR891268_chr22_enriched_R1.fastq.gz",filetype:"fastqsanger"},{identifier:"reverse",class:"File",location:"https://zenodo.org/record/3862793/files/SRR891268_chr22_enriched_R2.fastq.gz",filetype:"fastqsanger"}]}]},reference_genome:"hg19",effective_genome_size:27e8,bin_size:1e3},outputs:{"mapping stats":{element_tests:{SRR891268_chr22_enriched:{asserts:[{that:"has_text",text:"7282 (2.59%) aligned concordantly 0 times"},{that:"has_text",text:"121059 (43.09%) aligned concordantly exactly 1 time"},{that:"has_text",text:"152623 (54.32%) aligned concordantly >1 times"}]}}},"MarkDuplicates metrics":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_text:{text:"0.02"}}}}},"BAM filtered rmDup":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:15810403,delta:1e6}}}}},"histogram of fragment length":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:47718,delta:4e3}}}}},"MACS2 narrowPeak":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_n_lines:{n:236}}}}},"MACS2 report":{element_tests:{SRR891268_chr22_enriched:{asserts:[{that:"has_text",text:"# tag size is determined as 47 bps"},{that:"has_text",text:"# total tags in treatment: 262080"}]}}},"Coverage from MACS2 (bigwig)":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:2892925,delta:2e5}}}}},"1kb around summits":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_n_lines:{n:217}}}}},"Nb of reads in summits +-500bp":{element_tests:{SRR891268_chr22_enriched:{asserts:{has_line:{line:"9548"}}}}},bigwig_norm:{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:1253177,delta:1e5}}}}},bigwig_norm2:{element_tests:{SRR891268_chr22_enriched:{asserts:{has_size:{value:1248419,delta:1e5}}}}},"MultiQC on input dataset(s): Stats":{asserts:{has_line:{line:"Sample MACS2_mqc_generalstats_macs2_d MACS2_mqc_generalstats_macs2_peak_count Picard: Mark Duplicates_mqc_generalstats_picard_mark_duplicates_PERCENT_DUPLICATION Bowtie 2 / HiSAT2_mqc_generalstats_bowtie_2_hisat2_overall_alignment_rate Cutadapt_mqc_generalstats_cutadapt_percent_trimmed"},has_text_matching:{expression:"SRR891268_chr22_enriched 200.0 236 2.7[0-9]* 98.[0-9]* 4.7[0-9]*"}}},"MultiQC webpage":{asserts:[{that:"has_text",text:'Filtered Reads'},{that:"has_text",text:"% Aligned"},{that:"has_text",text:"% BP Trimmed"}]}}}]}],path:"./workflows/epigenetics/atacseq"},{version:1.2,workflows:[{name:"main",subclass:"Galaxy",publish:!0,primaryDescriptorPath:"/cutandrun.ga",testParameterFiles:["/cutandrun-tests.yml"],authors:[{name:"Lucille Delisle",orcid:"0000-0002-1964-4960"}],definition:{a_galaxy_workflow:"true",annotation:'This workflow take as input a collection of paired fastq. Remove adapters with cutadapt, map pairs with bowtie2 allowing dovetail. Keep MAPQ30 and concordant pairs. BAM to BED. MACS2 with "ATAC" parameters.',creator:[{class:"Person",identifier:"https://orcid.org/0000-0002-1964-4960",name:"Lucille Delisle"}],"format-version":"0.1",license:"MIT",release:"0.13",name:"CUTandRUN",steps:{0:{annotation:"Should be a paired collection with CUT and RUN fastqs",content_id:null,errors:null,id:0,input_connections:{},inputs:[{description:"Should be a paired collection with CUT and RUN fastqs",name:"PE fastq input"}],label:"PE fastq input",name:"Input dataset collection",outputs:[],position:{left:0,top:268},tool_id:null,tool_state:'{"optional": false, "tag": "", "collection_type": "list:paired"}',tool_version:null,type:"data_collection_input",uuid:"9fbb875d-05b1-4557-bd2e-710f80dd1a21",when:null,workflow_outputs:[]},1:{annotation:"Please use: For R1: - For TrueSeq (CUT and RUN): GATCGGAAGAGCACACGTCTGAACTCCAGTCAC or AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC - For Nextera (CUT and TAG): CTGTCTCTTATACACATCTCCGAGCCCACGAGAC 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CTGTCTCTTATACACATCTGACGCTGCCGACGA",name:"adapter_reverse"}],label:"adapter_reverse",name:"Input parameter",outputs:[],position:{left:62,top:483},tool_id:null,tool_state:'{"parameter_type": "text", "optional": false}',tool_version:null,type:"parameter_input",uuid:"68b198e5-7de8-445f-807f-7f432090e2c7",when:null,workflow_outputs:[]},3:{annotation:"reference_genome",content_id:null,errors:null,id:3,input_connections:{},inputs:[{description:"reference_genome",name:"reference_genome"}],label:"reference_genome",name:"Input parameter",outputs:[],position:{left:128,top:589},tool_id:null,tool_state:'{"restrictOnConnections": true, "parameter_type": "text", "optional": false}',tool_version:null,type:"parameter_input",uuid:"7f16a988-8ead-4a4a-9be1-8f5fbb744dec",when:null,workflow_outputs:[]},4:{annotation:"Used by MACS2: H. sapiens: 2700000000, M. musculus: 1870000000, D. melanogaster: 120000000, C. elegans: 90000000",content_id:null,errors:null,id:4,input_connections:{},inputs:[{description:"Used by MACS2: H. sapiens: 2700000000, M. musculus: 1870000000, D. melanogaster: 120000000, C. elegans: 90000000",name:"effective_genome_size"}],label:"effective_genome_size",name:"Input parameter",outputs:[],position:{left:176,top:689},tool_id:null,tool_state:'{"parameter_type": "integer", "optional": false}',tool_version:null,type:"parameter_input",uuid:"aae90433-355d-4f27-bdfb-77f8bc4fcff5",when:null,workflow_outputs:[]},5:{annotation:"Whether you want to have a profile normalized as Signal to Million Reads",content_id:null,errors:null,id:5,input_connections:{},inputs:[{description:"Whether you want to have a profile normalized as Signal to Million Reads",name:"normalize_profile"}],label:"normalize_profile",name:"Input parameter",outputs:[],position:{left:228,top:780.4016399999857},tool_id:null,tool_state:'{"parameter_type": "boolean", "optional": 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t.src});return(s,a)=>(u(),d("img",{src:g(i),alt:e.alt,width:e.width,height:e.height},null,8,f))}});export{p as default}; +import{h as r,j as n,ao as c,ag as h,ae as o,ap as l,o as u,c as d,I as g}from"./n_FTHU6g.js";const f=["src","alt","width","height"],p=r({__name:"ProseImg",props:{src:{type:String,default:""},alt:{type:String,default:""},width:{type:[String,Number],default:void 0},height:{type:[String,Number],default:void 0}},setup(e){const t=e,i=n(()=>{var s;if((s=t.src)!=null&&s.startsWith("/")&&!t.src.startsWith("//")){const a=c(h(o().app.baseURL));if(a!=="/"&&!t.src.startsWith(a))return l(a,t.src)}return t.src});return(s,a)=>(u(),d("img",{src:g(i),alt:e.alt,width:e.width,height:e.height},null,8,f))}});export{p as default}; diff --git a/_nuxt/YFyjD2lF.js b/_nuxt/POQ13vtN.js similarity index 85% rename from _nuxt/YFyjD2lF.js rename to _nuxt/POQ13vtN.js index 092eaa923..8816ab3f7 100644 --- a/_nuxt/YFyjD2lF.js +++ b/_nuxt/POQ13vtN.js @@ -1 +1 @@ -import{h as i,ae as c,j as p,o as 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IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
  • Clinical Metaproteomics Data Interpretation
  • Clinical Metaproteomics Verification Workflow
  • Clinical Metaproteomics Quantitation
  • Generate a Clinical Metaproteomics Database
  • MetaProSIP OpenMS 2.8
  • Segmentation and counting of cell nuclei in fluorescence microscopy images
  • bacterial_genome_annotation
  • amr_gene_detection
  • Gene-based Pathogen Identification
  • Pathogen Detection PathoGFAIR Samples Aggregation and Visualisation
  • Allele-based Pathogen Identification
  • Nanopore Preprocessing
  • Taxonomy Profiling and Visualization with Krona
  • Parallel Accession Download
  • sra_manifest_to_concatenated_fastqs_parallel
  • Differential gene expression for single-cell data using pseudo-bulk counts with edgeR
  • scRNA-seq_preprocessing_10X_cellPlex
  • scRNA-seq_preprocessing_10X_v3_Bundle
  • Velocyto-on10X-from-bundled
  • Velocyto-on10X-filtered-barcodes
  • baredSC_1d_logNorm
  • baredSC_2d_logNorm
  • COVID-19: variation analysis of ARTIC ONT data
  • SARS-CoV-2 Illumina Amplicon pipeline - iVar based
  • COVID-19: variation analysis on WGS SE data
  • COVID-19: variation analysis reporting
  • COVID-19: variation analysis on ARTIC PE data
  • COVID-19: consensus construction
  • COVID-19: variation analysis on WGS PE data
  • dcTMD calculations with GROMACS
  • Fragment-based virtual screening using rDock for docking and SuCOS for pose scoring
  • MMGBSA calculations with GROMACS
  • Create GRO and TOP complex files
  • Quality and Contamination Control For Genome Assembly
  • Assembly polishing with long reads
  • Bacterial Genome Assembly using Shovill
  • Genome assembly with Flye
  • Average Bigwig between replicates
  • Get Confident Peaks From ChIP_SR replicates
  • Get Confident Peaks From ChIP_PE replicates
  • Get Confident Peaks From ATAC or CUTandRUN replicates
  • ChIPseq_SR
  • ATACseq
  • CUTandRUN
  • ChIPseq_PE
  • Hi-C_fastqToCool_hicup_cooler
  • cHi-C_fastqToCool_hicup_cooler
  • Hi-C_juicermediumtabixToCool_cooler
  • Hi-C_fastqToPairs_hicup
  • RNA-seq for Single-read fastqs
  • Goseq GO-KEGG Enrichment Analysis
  • BREW3R
  • RNAseq_DE_filtering_plotting
  • RNA-seq for Paired-end fastqs
  • Pox Virus Illumina Amplicon Workflow from half-genomes
  • kmer-profiling-hifi-VGP1
  • Assembly-decontamination-VGP9
  • Purge-duplicate-contigs-VGP6
  • Purging-duplicates-one-haplotype-VGP6b
  • Scaffolding-BioNano-VGP7
  • kmer-profiling-hifi-trio-VGP2
  • Generate Nx and Size plots for multiple assemblies
  • Assembly-Hifi-HiC-phasing-VGP4
  • Assembly-Hifi-Trio-phasing-VGP5
  • Scaffolding with Hi-C data VGP8
  • Mitogenome-Assembly-VGP0
  • Assembly-Hifi-only-VGP3
  • Paired end variant calling in haploid system
  • Generic variation analysis on WGS PE data
  • Generic variation analysis reporting
  • dada2 amplicon analysis pipeline - for paired end data
  • QIIME2 IIa: Denoising (sequence quality control) and feature table creation (single-end)
  • QIIME2 IIb: Denoising (sequence quality control) and feature table creation (paired-end)
  • QIIME2 Ia: multiplexed data (single-end)
  • QIIME2 Ib: multiplexed data (paired-end)
  • QIIME2 Ic: Demultiplexed data (single-end)
  • QIIME2 Id: Demultiplexed data (paired-end)
  • QIIME2-III-V-Phylogeny-Rarefaction-Taxonomic-Analysis
  • QIIME2 VI: Diversity metrics and estimations
  • Mass spectrometry: GCMS with metaMS
  • Mass spectrometry: LC-MS preprocessing with XCMS
  • Repeat masking with RepeatModeler and RepeatMasker

Clinical Metaproteomics Data Interpretation

This workflow will perform taxonomic and functional annotations using Unipept and statistical analysis using MSstatsTMT.

name:clinicalMP
Details

Clinical Metaproteomics Verification Workflow

In proteomics research, verifying detected peptides is essential for ensuring data accuracy and biological relevance. This tutorial continues from the clinical metaproteomics discovery workflow, focusing on verifying identified microbial peptides using the PepQuery tool.

name:clinicalMP
Details

Clinical Metaproteomics Quantitation

Clinical Metaproteomics 4: Quantitation

name:clinicalMP
Details

Generate a Clinical Metaproteomics Database

The workflow begins with the Database Generation process. The Galaxy-P team has developed a workflow that collects protein sequences from known disease-causing microorganisms to build a comprehensive database. This extensive database is then refined into a smaller, more relevant dataset using the Metanovo tool.

name:clinicalMP
Details

MetaProSIP OpenMS 2.8

Automated inference of stable isotope incorporation rates in proteins for functional metaproteomics

Details

Segmentation and counting of cell nuclei in fluorescence microscopy images

This workflow performs segmentation and counting of cell nuclei using fluorescence microscopy images. The segmentation step is performed using Otsu thresholding (Otsu, 1979). The workflow is based on the tutorial: https://training.galaxyproject.org/training-material/topics/imaging/tutorials/imaging-introduction/tutorial.html

Details

bacterial_genome_annotation

Annotation of an assembled bacterial genomes to detect genes, potential plasmids, integrons and Insertion sequence (IS) elements.

GenomicsfastaABRomicsbacterial-genomicsAnnotationgenome-annotation
Details

amr_gene_detection

Antimicrobial resistance gene detection from assembled bacterial genomes

fastaGenomicsABRomicsantibiotic-resistanceantimicrobial-resistance-genesantimicrobial resistancebacterial-genomicsAMRAMR-detection
Details

Gene-based Pathogen Identification

Nanopore datasets analysis - Phylogenetic Identification - antibiotic resistance genes detection and contigs building

name:Collectionname:PathoGFAIRname:IWCname:microGalaxy
Details

Pathogen Detection PathoGFAIR Samples Aggregation and Visualisation

Pathogens of all samples report generation and visualization

name:Collectionname:microGalaxyname:PathoGFAIRname:IWC
Details

Allele-based Pathogen Identification

Microbiome - Variant calling and Consensus Building

name:Collectionname:microGalaxyname:PathoGFAIRname:IWC
Details

Nanopore Preprocessing

Microbiome - QC and Contamination Filtering

name:Collectionname:microGalaxyname:PathoGFAIRname:Nanoporename:IWC
Details

Taxonomy Profiling and Visualization with Krona

Microbiome - Taxonomy Profiling

name:Collectionname:microGalaxyname:PathoGFAIRname:IWC
Details

Parallel Accession Download

Downloads fastq files for sequencing run accessions provided in a text file using fasterq-dump. Creates one job per listed run accession.

Details

sra_manifest_to_concatenated_fastqs_parallel

This workflow takes as input a SRA_manifest from SRA Run Selector and will generate one fastq file or fastq pair of file for each experiment (concatenated multiple runs if necessary). Output will be relabelled to match the column specified by the user.

Details

Differential gene expression for single-cell data using pseudo-bulk counts with edgeR

This workflow uses the decoupler tool in Galaxy to generate pseudobulk counts from an annotated AnnData file obtained from scRNA-seq analysis. Following the pseudobulk step, differential expression genes (DEG) are calculated using the edgeR tool. The workflow also includes data sanitation steps to ensure smooth operation of edgeR and minimizing potential issues. Additionally, a Volcano plot tool is used to visualize the results after the DEG analysis.

Details

scRNA-seq_preprocessing_10X_cellPlex

This workflow processes the CMO fastqs with CITE-seq-Count and include the translation step required for cellPlex processing. In parallel it processes the Gene Expresion fastqs with STARsolo, filter cells with DropletUtils and reformat all outputs to be easily used by the function 'Read10X' from Seurat.

#single-cell
Details

scRNA-seq_preprocessing_10X_v3_Bundle

This workflow processes the Gene Expresion fastqs with STARsolo, filter cells with DropletUtils and reformat all outputs to be easily used by the function 'Read10X' from Seurat.

#single-cell
Details

Velocyto-on10X-from-bundled

Run velocyto to get loom with counts of spliced and unspliced. It will extract the 'barcodes' from the bundled outputs.

name:single-cell
Details

Velocyto-on10X-filtered-barcodes

Run velocyto to get loom with counts of spliced and unspliced

name:single-cell
Details

baredSC_1d_logNorm

Run baredSC in 1 dimension in logNorm for 1 to N gaussians and combine models.

Details

baredSC_2d_logNorm

Run baredSC in 2 dimensions in logNorm for 1 to N gaussians and combine models.

Details

COVID-19: variation analysis of ARTIC ONT data

This workflow for ONT-sequenced ARTIC data is modeled after the alignment/variant-calling steps of the [ARTIC pipeline](https://artic.readthedocs.io/en/latest/). It performs, essentially, the same steps as that pipeline’s minion command, i.e. read mapping with minimap2 and variant calling with medaka. Like the Illumina ARTIC workflow it uses ivar for primer trimming. Since ONT-sequenced reads have a much higher error rate than Illumina-sequenced reads and are therefor plagued more by false-positive variant calls, this workflow does make no attempt to handle amplicons affected by potential primer-binding site mutations.

COVID-19ARTICONTcovid19.galaxyproject.org
Details

SARS-CoV-2 Illumina Amplicon pipeline - iVar based

Find and annotate variants in ampliconic SARS-CoV-2 Illumina sequencing data and classify samples with pangolin and nextclade

COVID-19ARTICiwc
Details

COVID-19: variation analysis on WGS SE data

This workflows performs single end read mapping with bowtie2 followed by sensitive variant calling across a wide range of AFs with lofreq

COVID-19covid19.galaxyproject.org
Details

COVID-19: variation analysis reporting

This workflow takes a VCF dataset of variants produced by any of the *-variant-calling workflows in https://github.com/galaxyproject/iwc/tree/main/workflows/sars-cov-2-variant-calling and generates tabular lists of variants by Samples and by Variant, and an overview plot of variants and their allele-frequencies.

COVID-19covid19.galaxyproject.org
Details

COVID-19: variation analysis on ARTIC PE data

The workflow for Illumina-sequenced ARTIC data builds on the RNASeq workflow for paired-end data using the same steps for mapping and variant calling, but adds extra logic for trimming ARTIC primer sequences off reads with the ivar package. In addition, this workflow uses ivar also to identify amplicons affected by ARTIC primer-binding site mutations and tries to exclude reads derived from such tainted amplicons when calculating allele-frequencies of other variants.

COVID-19ARTICcovid19.galaxyproject.org
Details

COVID-19: consensus construction

Build a consensus sequence from FILTER PASS variants with intrasample allele-frequency above a configurable consensus threshold. Hard-mask regions with low coverage (but not consensus variants within them) and ambiguous sites.

COVID-19covid19.galaxyproject.org
Details

COVID-19: variation analysis on WGS PE data

This workflows performs paired end read mapping with bwa-mem followed by sensitive variant calling across a wide range of AFs with lofreq

COVID-19covid19.galaxyproject.orgiwcemergen_validated
Details

dcTMD calculations with GROMACS

Perform dcTMD free energy simulations and calculations

Details

Fragment-based virtual screening using rDock for docking and SuCOS for pose scoring

Virtual screening of the SARS-CoV-2 main protease with rDock and pose scoring

Details

MMGBSA calculations with GROMACS

MMGBSA simulation and calculation

Details

Create GRO and TOP complex files

Details

Quality and Contamination Control For Genome Assembly

Short paired-end read analysis to provide quality analysis, read cleaning and taxonomy assignation

Genomicsfastqbacterial-genomicstaxonomy-assignmentpaired-endqualityABRomicstrimming
Details

Assembly polishing with long reads

Racon polish with long reads, x4

Details

Bacterial Genome Assembly using Shovill

Assembly of bacterial paired-end short read data with generation of quality metrics and reports

fastqGenomicsbacterial-genomicspaired-endassemblyqualityABRomics
Details

Genome assembly with Flye

Assemble long reads with Flye, then view assembly statistics and assembly graph

Details

Average Bigwig between replicates

We assume the identifiers of the input list are like: sample_name_replicateID. The identifiers of the output list will be: -sample_name

Details

Get Confident Peaks From ChIP_SR replicates

This workflow takes as input SR BAM from ChIP-seq. It calls peaks on each replicate and intersect them. In parallel, each BAM is subsetted to smallest number of reads. Peaks are called using all subsets combined. Only peaks called using a combination of all subsets which have summits intersecting the intersection of at least x replicates will be kept.

ATAC-seq
Details

Get Confident Peaks From ChIP_PE replicates

This workflow takes as input PE BAM from ChIP-seq. It calls peaks on each replicate and intersect them. In parallel, each BAM is subsetted to smallest number of reads. Peaks are called using all subsets combined. Only peaks called using a combination of all subsets which have summits intersecting the intersection of at least x replicates will be kept.

ATAC-seq
Details

Get Confident Peaks From ATAC or CUTandRUN replicates

This workflow takes as input BAM from ATAC-seq or CUT&amp;RUN. It calls peaks on each replicate and intersect them. In parallel, each BAM is subsetted to smallest number of reads. Peaks are called using all subsets combined. Only peaks called using a combination of all subsets which have summits intersecting the intersection of at least x replicates will be kept.

ATAC-seq
Details

ChIPseq_SR

This workflow takes as input a collection of fastqs (single reads). Remove adapters with cutadapt, map with bowtie2. Keep MAPQ30. MACS2 for bam with fixed extension or model.

ChIP
Details

ATACseq

This workflow takes as input a collection of paired fastq. It will remove bad quality and adapters with cutadapt. Map with Bowtie2 end-to-end. Will remove reads on MT and unconcordant pairs and pairs with mapping quality below 30 and PCR duplicates. Will compute the pile-up on 5' +- 100bp. Will call peaks and count the number of reads falling in the 1kb region centered on the summit. Will compute 2 normalization for coverage: normalized by million reads and normalized by million reads in peaks. Will plot the number of reads for each fragment length.

ATACseq
Details

CUTandRUN

This workflow take as input a collection of paired fastq. Remove adapters with cutadapt, map pairs with bowtie2 allowing dovetail. Keep MAPQ30 and concordant pairs. BAM to BED. MACS2 with "ATAC" parameters.

CUTnRUN
Details

ChIPseq_PE

This workflow takes as input a collection of paired fastqs. Remove adapters with cutadapt, map pairs with bowtie2. Keep MAPQ30 and concordant pairs. MACS2 for paired bam.

ChIP
Details

Hi-C_fastqToCool_hicup_cooler

This workflow takes as input a collection of paired fastq. It uses HiCUP to go from fastq to validPair file using the middle of the fragment as coordinates. The pairs are filtered for MAPQ and sorted by cooler to generate a tabix dataset. Cooler is used to generate a balanced cool file to the desired resolution.

Hi-C
Details

cHi-C_fastqToCool_hicup_cooler

This workflow take as input a collection of paired fastq. It uses HiCUP to go from fastq to validPair file. The pairs are filtered for MAPQ and for the region captured. Then, they are sorted by cooler to generate a tabix dataset. Cooler is used to generate a balanced cool file to the desired resolution.

Hi-C
Details

Hi-C_juicermediumtabixToCool_cooler

This workflow uses as input a collection of juicer medium tabix files and a genome name. It builds balanced cool file to the desired resolution.

Hi-C
Details

Hi-C_fastqToPairs_hicup

This workflow takes as input a collection of paired fastq. It uses HiCUP to go from fastq to validPair file. First truncate the fastq using the cutting sequence to guess the fill-in. Then map the truncated fastq. Then asign to fragment and filter the self-ligated and dandling ends or internal (it can also filter for the size). Then it removes the duplicates. Convert the output to be compatible with juicebox or cooler using the middle of the fragment as coordinates. Finally filter for mapping quality

Hi-C
Details

RNA-seq for Single-read fastqs

This workflow takes as input a list of single-end fastqs. Adapters and bad quality bases are removed with fastp. Reads are mapped with STAR with ENCODE parameters and genes are counted simultaneously as well as normalized coverage (per million mapped reads) on uniquely mapped reads. The counts are reprocessed to be similar to HTSeq-count output. Alternatively, featureCounts can be used to count the reads/fragments per gene. FPKM are computed with cufflinks and/or with StringTie. The unstranded normalized coverage is computed with bedtools. +sample_name

Details

Get Confident Peaks From ChIP_SR replicates

This workflow takes as input SR BAM from ChIP-seq. It calls peaks on each replicate and intersect them. In parallel, each BAM is subsetted to smallest number of reads. Peaks are called using all subsets combined. Only peaks called using a combination of all subsets which have summits intersecting the intersection of at least x replicates will be kept.

ATAC-seq
Details

Get Confident Peaks From ChIP_PE replicates

This workflow takes as input PE BAM from ChIP-seq. It calls peaks on each replicate and intersect them. In parallel, each BAM is subsetted to smallest number of reads. Peaks are called using all subsets combined. Only peaks called using a combination of all subsets which have summits intersecting the intersection of at least x replicates will be kept.

ATAC-seq
Details

Get Confident Peaks From ATAC or CUTandRUN replicates

This workflow takes as input BAM from ATAC-seq or CUT&amp;RUN. It calls peaks on each replicate and intersect them. In parallel, each BAM is subsetted to smallest number of reads. Peaks are called using all subsets combined. Only peaks called using a combination of all subsets which have summits intersecting the intersection of at least x replicates will be kept.

ATAC-seq
Details

ChIPseq_SR

This workflow takes as input a collection of fastqs (single reads). Remove adapters with cutadapt, map with bowtie2. Keep MAPQ30. MACS2 for bam with fixed extension or model.

ChIP
Details

ATACseq

This workflow takes as input a collection of paired fastq. It will remove bad quality and adapters with cutadapt. Map with Bowtie2 end-to-end. Will remove reads on MT and unconcordant pairs and pairs with mapping quality below 30 and PCR duplicates. Will compute the pile-up on 5' +- 100bp. Will call peaks and count the number of reads falling in the 1kb region centered on the summit. Will compute 2 normalization for coverage: normalized by million reads and normalized by million reads in peaks. Will plot the number of reads for each fragment length.

ATACseq
Details

CUTandRUN

This workflow take as input a collection of paired fastq. Remove adapters with cutadapt, map pairs with bowtie2 allowing dovetail. Keep MAPQ30 and concordant pairs. BAM to BED. MACS2 with "ATAC" parameters.

CUTnRUN
Details

ChIPseq_PE

This workflow takes as input a collection of paired fastqs. Remove adapters with cutadapt, map pairs with bowtie2. Keep MAPQ30 and concordant pairs. MACS2 for paired bam.

ChIP
Details

Hi-C_fastqToCool_hicup_cooler

This workflow takes as input a collection of paired fastq. It uses HiCUP to go from fastq to validPair file using the middle of the fragment as coordinates. The pairs are filtered for MAPQ and sorted by cooler to generate a tabix dataset. Cooler is used to generate a balanced cool file to the desired resolution.

Hi-C
Details

cHi-C_fastqToCool_hicup_cooler

This workflow take as input a collection of paired fastq. It uses HiCUP to go from fastq to validPair file. The pairs are filtered for MAPQ and for the region captured. Then, they are sorted by cooler to generate a tabix dataset. Cooler is used to generate a balanced cool file to the desired resolution.

Hi-C
Details

Hi-C_juicermediumtabixToCool_cooler

This workflow uses as input a collection of juicer medium tabix files and a genome name. It builds balanced cool file to the desired resolution.

Hi-C
Details

Hi-C_fastqToPairs_hicup

This workflow takes as input a collection of paired fastq. It uses HiCUP to go from fastq to validPair file. First truncate the fastq using the cutting sequence to guess the fill-in. Then map the truncated fastq. Then asign to fragment and filter the self-ligated and dandling ends or internal (it can also filter for the size). Then it removes the duplicates. Convert the output to be compatible with juicebox or cooler using the middle of the fragment as coordinates. Finally filter for mapping quality

Hi-C
Details

RNA-seq for Single-read fastqs

This workflow takes as input a list of single-end fastqs. Adapters and bad quality bases are removed with fastp. Reads are mapped with STAR with ENCODE parameters and genes are counted simultaneously as well as normalized coverage (per million mapped reads) on uniquely mapped reads. The counts are reprocessed to be similar to HTSeq-count output. Alternatively, featureCounts can be used to count the reads/fragments per gene. FPKM are computed with cufflinks and/or with StringTie. The unstranded normalized coverage is computed with bedtools.

RNAseqtranscriptomics
Details

Goseq GO-KEGG Enrichment Analysis

This workflow is used for GO and KEGG enrichment analysis using GOseq tools.

Details

BREW3R

This workflow takes a collection of BAM (output of STAR) and a gtf. It extends the input gtf using de novo annotation.

Details

RNAseq_DE_filtering_plotting

This workflow can only work on an experimental setup with exactly 2 conditions. It takes two collections of count tables as input and performs differential expression analysis. Additionally it filters for DE genes based on adjusted p-value and log2 fold changes thresholds. It also generates informative plots.

transcriptomicsRNAseq
Details

RNA-seq for Paired-end fastqs

This workflow takes as input a list of paired-end fastqs. Adapters and bad quality bases are removed with fastp. Reads are mapped with STAR with ENCODE parameters and genes are counted simultaneously as well as normalized coverage (per million mapped reads) on uniquely mapped reads. The counts are reprocessed to be similar to HTSeq-count output. Alternatively, featureCounts can be used to count the reads/fragments per gene. FPKM are computed with cufflinks and/or with StringTie. The unstranded normalized coverage is computed with bedtools.

RNAseqtranscriptomics
Details

Pox Virus Illumina Amplicon Workflow from half-genomes

A workflow for the analysis of pox virus genomes sequenced as half-genomes (for ITR resolution) in a tiled-amplicon approach

poxvirology
Details

kmer-profiling-hifi-VGP1

ReviewedVGP
Details

Assembly-decontamination-VGP9

VGP_curated
Details

Purge-duplicate-contigs-VGP6

Purge contigs marked as duplicates by purge_dups (could be haplotypic duplication or overlap duplication). This workflow is the 6th workflow of the VGP pipeline. It is meant to be run after one of the contigging steps (Workflow 3, 4, or 5)

VGP_curated
Details

Purging-duplicates-one-haplotype-VGP6b

VGP_curated
Details

Scaffolding-BioNano-VGP7

VGP_curated
Details

kmer-profiling-hifi-trio-VGP2

Create Meryl Database used for the estimation of assembly parameters and quality control with Merqury. Part of the VGP pipeline.

ReviewedVGP
Details

Generate Nx and Size plots for multiple assemblies

Details

Assembly-Hifi-HiC-phasing-VGP4

VGPReviewed
Details

Assembly-Hifi-Trio-phasing-VGP5

VGPReviewed
Details

Scaffolding with Hi-C data VGP8

Scaffolding using HiC data with YAHS.

VGP_curated
Details

Mitogenome-Assembly-VGP0

ReviewedVGP
Details

Assembly-Hifi-only-VGP3

VGPReviewed
Details

Paired end variant calling in haploid system

Workflow for variant analysis against a reference genome in GenBank format

genericVeuPathHaploid
Details

Generic variation analysis on WGS PE data

Workflow for variant analysis against a reference genome in GenBank format

mpxvgeneric
Details

Generic variation analysis reporting

This workflow takes a VCF dataset of variants produced by any of the variant calling workflows in https://github.com/galaxyproject/iwc/tree/main/workflows/sars-cov-2-variant-calling and generates tabular lists of variants by Samples and by Variant, and an overview plot of variants and their allele-frequencies.

mpvxgeneric
Details

dada2 amplicon analysis pipeline - for paired end data

dada2 amplicon analysis for paired end data @@ -65,5 +65,5 @@ https://training.galaxyproject.org/training-material/topics/metabolomics/tutorials/gcms/tutorial.html

metabolomicsMSworkflow4metabolomicsGC-MSGTNmetaMS
Details

Mass spectrometry: LC-MS preprocessing with XCMS

This workflow is composed with the XCMS tool R package (Smith, C.A. 2006) able to extract, filter, align and fill gapand the possibility to annotate isotopes, adducts and fragments using the CAMERA R package (Kuhl, C 2012). -https://training.galaxyproject.org/training-material/topics/metabolomics/tutorials/lcms-preprocessing/tutorial.html

metabolomicsMSLC-MSworkflow4metabolomicsxcmsGTN
Details

Repeat masking with RepeatModeler and RepeatMasker

Details
- \ No newline at end of file +https://training.galaxyproject.org/training-material/topics/metabolomics/tutorials/lcms-preprocessing/tutorial.html

metabolomicsMSLC-MSworkflow4metabolomicsxcmsGTN
Details

Repeat masking with RepeatModeler and RepeatMasker

Details
+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-HiC-phasing-VGP4%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-HiC-phasing-VGP4%2Fmain/_payload.json index 0e219251b..b13eaef46 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-HiC-phasing-VGP4%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-HiC-phasing-VGP4%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004446] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573407] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-HiC-phasing-VGP4%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-HiC-phasing-VGP4%2Fmain/index.html index 77f9a188b..98c0470d1 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-HiC-phasing-VGP4%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-HiC-phasing-VGP4%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-Trio-phasing-VGP5%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-Trio-phasing-VGP5%2Fmain/_payload.json index d51b9bdc4..e4098c621 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-Trio-phasing-VGP5%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-Trio-phasing-VGP5%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004448] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573409] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-Trio-phasing-VGP5%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-Trio-phasing-VGP5%2Fmain/index.html index 606ee33bd..662f23559 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-Trio-phasing-VGP5%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-Trio-phasing-VGP5%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-only-VGP3%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-only-VGP3%2Fmain/_payload.json index 05a6fc480..ee31c3e86 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-only-VGP3%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-only-VGP3%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004463] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573433] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-only-VGP3%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-only-VGP3%2Fmain/index.html index 382c059ce..231ac4619 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-only-VGP3%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-Hifi-only-VGP3%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-decontamination-VGP9%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-decontamination-VGP9%2Fmain/_payload.json index dd793b69c..76eceb7a8 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-decontamination-VGP9%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-decontamination-VGP9%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004403] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573379] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-decontamination-VGP9%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-decontamination-VGP9%2Fmain/index.html index 21479fd40..31604c7a9 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-decontamination-VGP9%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FAssembly-decontamination-VGP9%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FMitogenome-assembly-VGP0%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FMitogenome-assembly-VGP0%2Fmain/_payload.json index 2e9e50e82..1f4a90760 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FMitogenome-assembly-VGP0%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FMitogenome-assembly-VGP0%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004461] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573431] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FMitogenome-assembly-VGP0%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FMitogenome-assembly-VGP0%2Fmain/index.html index 242bd5b34..8c006d319 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FMitogenome-assembly-VGP0%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FMitogenome-assembly-VGP0%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPlot-Nx-Size%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPlot-Nx-Size%2Fmain/_payload.json index 32cf56204..8c0bc940f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPlot-Nx-Size%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPlot-Nx-Size%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004443] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573395] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPlot-Nx-Size%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPlot-Nx-Size%2Fmain/index.html index 35720396b..2738fae7e 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPlot-Nx-Size%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPlot-Nx-Size%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicate-contigs-VGP6%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicate-contigs-VGP6%2Fmain/_payload.json index d4aed0fd9..3f029d8fc 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicate-contigs-VGP6%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicate-contigs-VGP6%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004406] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573381] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicate-contigs-VGP6%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicate-contigs-VGP6%2Fmain/index.html index db3664cff..5de012315 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicate-contigs-VGP6%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicate-contigs-VGP6%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicates-one-haplotype-VGP6b%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicates-one-haplotype-VGP6b%2Fmain/_payload.json index 605c27c16..fd876c01e 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicates-one-haplotype-VGP6b%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicates-one-haplotype-VGP6b%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004416] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573383] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicates-one-haplotype-VGP6b%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicates-one-haplotype-VGP6b%2Fmain/index.html index 26866aed2..30db01ef0 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicates-one-haplotype-VGP6b%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FPurge-duplicates-one-haplotype-VGP6b%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-Bionano-VGP7%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-Bionano-VGP7%2Fmain/_payload.json index 3d2e5103f..6b6a6dd13 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-Bionano-VGP7%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-Bionano-VGP7%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004418] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573391] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-Bionano-VGP7%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-Bionano-VGP7%2Fmain/index.html index bff4536b1..eaaf3ca7e 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-Bionano-VGP7%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-Bionano-VGP7%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-HiC-VGP8%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-HiC-VGP8%2Fmain/_payload.json index 46058a59a..aed0e94d9 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-HiC-VGP8%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-HiC-VGP8%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004458] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573429] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-HiC-VGP8%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-HiC-VGP8%2Fmain/index.html index 4d1b674c4..8cce41a0f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-HiC-VGP8%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2FScaffolding-HiC-VGP8%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fallele-based-pathogen-identification%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fallele-based-pathogen-identification%2Fmain/_payload.json index e410056e2..1eee27047 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fallele-based-pathogen-identification%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fallele-based-pathogen-identification%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004092] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573102] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fallele-based-pathogen-identification%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fallele-based-pathogen-identification%2Fmain/index.html index 13289a614..0280e7e70 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fallele-based-pathogen-identification%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fallele-based-pathogen-identification%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Famr_gene_detection%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Famr_gene_detection%2Fmain/_payload.json index 2efde4a7e..6ddc864f1 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Famr_gene_detection%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Famr_gene_detection%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004087] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573098] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Famr_gene_detection%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Famr_gene_detection%2Fmain/index.html index 18d454e56..b95959d8a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Famr_gene_detection%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Famr_gene_detection%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fassembly-with-flye%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fassembly-with-flye%2Fmain/_payload.json index ff67c45ea..d75583ee0 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fassembly-with-flye%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fassembly-with-flye%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004299] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573285] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fassembly-with-flye%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fassembly-with-flye%2Fmain/index.html index ef3ea800f..cc0d180ae 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fassembly-with-flye%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fassembly-with-flye%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fatacseq%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fatacseq%2Fmain/_payload.json index 592335a2b..6e6e8308e 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fatacseq%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fatacseq%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004319] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573306] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fatacseq%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fatacseq%2Fmain/index.html index 5c63e3992..f6de06e7c 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fatacseq%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fatacseq%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Faverage-bigwig-between-replicates%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Faverage-bigwig-between-replicates%2Fmain/_payload.json index a795c6648..b9fb20baf 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Faverage-bigwig-between-replicates%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Faverage-bigwig-between-replicates%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004302] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573287] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Faverage-bigwig-between-replicates%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Faverage-bigwig-between-replicates%2Fmain/index.html index 13ba44a73..7f2b68539 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Faverage-bigwig-between-replicates%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Faverage-bigwig-between-replicates%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial-genome-assembly%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial-genome-assembly%2Fmain/_payload.json index c40c2e935..545c9c78f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial-genome-assembly%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial-genome-assembly%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004297] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573283] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial-genome-assembly%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial-genome-assembly%2Fmain/index.html index fbcc98b22..15c4151c5 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial-genome-assembly%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial-genome-assembly%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial_genome_annotation%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial_genome_annotation%2Fmain/_payload.json index 2d9193aed..4cae3e2a0 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial_genome_annotation%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial_genome_annotation%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004086] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573097] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial_genome_annotation%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial_genome_annotation%2Fmain/index.html index b3c08dc3c..fb342ac50 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial_genome_annotation%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbacterial_genome_annotation%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-1d-logNorm/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-1d-logNorm/_payload.json index 23e43140f..e8538bc71 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-1d-logNorm/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-1d-logNorm/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004207] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573203] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-1d-logNorm/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-1d-logNorm/index.html index 5a52f31d4..beeaacfd5 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-1d-logNorm/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-1d-logNorm/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-2d-logNorm/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-2d-logNorm/_payload.json index ca74a048d..a546c7401 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-2d-logNorm/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-2d-logNorm/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004209] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573205] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-2d-logNorm/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-2d-logNorm/index.html index 09c3a39b3..ebeec656d 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-2d-logNorm/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbaredsc%2FbaredSC-2d-logNorm/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbrew3r%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbrew3r%2Fmain/_payload.json index c378637b7..876130116 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbrew3r%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbrew3r%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004385] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573362] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbrew3r%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbrew3r%2Fmain/index.html index 2c4115b2b..017279959 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbrew3r%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fbrew3r%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-pe%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-pe%2Fmain/_payload.json index 8e12c6cd2..661374394 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-pe%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-pe%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004338] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573310] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-pe%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-pe%2Fmain/index.html index 5854de766..ce23d58b4 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-pe%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-pe%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-sr%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-sr%2Fmain/_payload.json index 56abcb670..9891cf7c1 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-sr%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-sr%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004317] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573301] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-sr%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-sr%2Fmain/index.html index 2b3b7b1eb..e77d7689f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-sr%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fchipseq-sr%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-data-interpretation%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-data-interpretation%2Fmain/_payload.json index 140c34356..fcfdff72a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-data-interpretation%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-data-interpretation%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004074] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573085] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-data-interpretation%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-data-interpretation%2Fmain/index.html index 2a590d277..e487caa3f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-data-interpretation%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-data-interpretation%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-database-generation%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-database-generation%2Fmain/_payload.json index b1490f44d..01539fbd1 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-database-generation%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-database-generation%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004081] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573091] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-database-generation%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-database-generation%2Fmain/index.html index 0ce30dcab..5192e7812 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-database-generation%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-database-generation%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-quantitation%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-quantitation%2Fmain/_payload.json index 80640c6c1..6adb538db 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-quantitation%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-quantitation%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004078] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573089] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-quantitation%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-quantitation%2Fmain/index.html index 7c8eac3bc..40e324852 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-quantitation%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-quantitation%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-verification%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-verification%2Fmain/_payload.json index 2acdd6543..0246898b5 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-verification%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-verification%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004076] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573087] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-verification%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-verification%2Fmain/index.html index d743b32bc..ee4967d6d 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-verification%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fclinicalmp-verification%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-atac-cutandrun/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-atac-cutandrun/_payload.json index 23bc27d90..fe2fc8dab 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-atac-cutandrun/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-atac-cutandrun/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004314] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573299] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-atac-cutandrun/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-atac-cutandrun/index.html index c7cf956fd..8ec38e5e6 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-atac-cutandrun/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-atac-cutandrun/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-pe/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-pe/_payload.json index 1f656fe2c..2e02d589b 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-pe/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-pe/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004312] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573297] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-pe/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-pe/index.html index 0c3ba7392..232e31f19 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-pe/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-pe/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-sr/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-sr/_payload.json index db933d3c2..60437323a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-sr/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-sr/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004304] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573295] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-sr/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-sr/index.html index 178eea7d3..6d318bc90 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-sr/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fconsensus-peaks%2Fconsensus-peaks-chip-sr/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fcutandrun%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fcutandrun%2Fmain/_payload.json index 24f062047..9b8c13c25 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fcutandrun%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fcutandrun%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004322] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573308] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fcutandrun%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fcutandrun%2Fmain/index.html index 12324e3df..5c3dedbb1 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fcutandrun%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fcutandrun%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fdada2%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fdada2%2Fmain/_payload.json index ac3e7171a..c19b81d34 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fdada2%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fdada2%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004487] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573452] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fdada2%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fdada2%2Fmain/index.html index 0cef64890..bffc7f045 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fdada2%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fdada2%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-cellplex/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-cellplex/_payload.json index 84ea150f9..ad19f2507 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-cellplex/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-cellplex/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004184] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573187] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-cellplex/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-cellplex/index.html index baf5e9843..7e0393182 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-cellplex/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-cellplex/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-v3/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-v3/_payload.json index af8865e21..41a9d754a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-v3/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-v3/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004187] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573190] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-v3/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-v3/index.html index 502198bd8..5ad257ba5 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-v3/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffastq-to-matrix-10x%2Fscrna-seq-fastq-to-matrix-10x-v3/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffluorescence-nuclei-segmentation-and-counting%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffluorescence-nuclei-segmentation-and-counting%2Fmain/_payload.json index 63fe1e880..f98cbe5b2 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffluorescence-nuclei-segmentation-and-counting%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffluorescence-nuclei-segmentation-and-counting%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004085] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573095] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffluorescence-nuclei-segmentation-and-counting%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffluorescence-nuclei-segmentation-and-counting%2Fmain/index.html index 4bbb89411..72961bcb8 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffluorescence-nuclei-segmentation-and-counting%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffluorescence-nuclei-segmentation-and-counting%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffragment-based-docking-scoring%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffragment-based-docking-scoring%2Fmain/_payload.json index f9db061b8..934f98426 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffragment-based-docking-scoring%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffragment-based-docking-scoring%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004240] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573231] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffragment-based-docking-scoring%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffragment-based-docking-scoring%2Fmain/index.html index f84bd2e3e..63cba4046 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffragment-based-docking-scoring%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ffragment-based-docking-scoring%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgcms-metams%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgcms-metams%2Fmain/_payload.json index 6fa27bbbd..723e51f15 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgcms-metams%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgcms-metams%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004541] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573490] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgcms-metams%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgcms-metams%2Fmain/index.html index b7359f2c7..44ceaef2a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgcms-metams%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgcms-metams%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgene-based-pathogen-identification%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgene-based-pathogen-identification%2Fmain/_payload.json index 81a240617..301938ffb 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgene-based-pathogen-identification%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgene-based-pathogen-identification%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004089] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573099] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgene-based-pathogen-identification%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgene-based-pathogen-identification%2Fmain/index.html index 42acf1e8b..e7008358f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgene-based-pathogen-identification%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgene-based-pathogen-identification%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgeneric-variant-calling-wgs-pe%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgeneric-variant-calling-wgs-pe%2Fmain/_payload.json index 177da90c9..6c63703c1 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgeneric-variant-calling-wgs-pe%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgeneric-variant-calling-wgs-pe%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004467] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573446] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgeneric-variant-calling-wgs-pe%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgeneric-variant-calling-wgs-pe%2Fmain/index.html index a09c677a9..3e8bd4712 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgeneric-variant-calling-wgs-pe%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgeneric-variant-calling-wgs-pe%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgoseq%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgoseq%2Fmain/_payload.json index 05015f2fc..cb9750d08 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgoseq%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgoseq%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004383] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573360] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgoseq%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgoseq%2Fmain/index.html index 002cfeaac..94b75762f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgoseq%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgoseq%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-dctmd%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-dctmd%2Fmain/_payload.json index aa02294d7..a2ed279cb 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-dctmd%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-dctmd%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004235] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573229] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-dctmd%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-dctmd%2Fmain/index.html index b0f5595e7..a2019d9a8 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-dctmd%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-dctmd%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-mmgbsa%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-mmgbsa%2Fmain/_payload.json index 0de64c9f8..5b9a172fd 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-mmgbsa%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-mmgbsa%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004263] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573233] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-mmgbsa%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-mmgbsa%2Fmain/index.html index e31ee7cc4..f66a1f6e1 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-mmgbsa%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fgromacs-mmgbsa%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhaploid-variant-calling-wgs-pe%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhaploid-variant-calling-wgs-pe%2Fmain/_payload.json index d96228320..5e00890d3 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhaploid-variant-calling-wgs-pe%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhaploid-variant-calling-wgs-pe%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004465] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573435] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhaploid-variant-calling-wgs-pe%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhaploid-variant-calling-wgs-pe%2Fmain/index.html index c81a753d6..5af43feb9 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhaploid-variant-calling-wgs-pe%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhaploid-variant-calling-wgs-pe%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fchic-fastq-to-cool-hicup-cooler/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fchic-fastq-to-cool-hicup-cooler/_payload.json index 4302e368e..d3d7584a9 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fchic-fastq-to-cool-hicup-cooler/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fchic-fastq-to-cool-hicup-cooler/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004349] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573325] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fchic-fastq-to-cool-hicup-cooler/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fchic-fastq-to-cool-hicup-cooler/index.html index 9fce3887c..d8d19f4af 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fchic-fastq-to-cool-hicup-cooler/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fchic-fastq-to-cool-hicup-cooler/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-cool-hicup-cooler/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-cool-hicup-cooler/_payload.json index db1ff3fda..d2ce5b003 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-cool-hicup-cooler/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-cool-hicup-cooler/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004340] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573311] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-cool-hicup-cooler/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-cool-hicup-cooler/index.html index 8239c3d5b..8f9e7d38e 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-cool-hicup-cooler/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-cool-hicup-cooler/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-pairs-hicup/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-pairs-hicup/_payload.json index 9c6640ba2..10566edf8 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-pairs-hicup/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-pairs-hicup/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004378] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573356] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-pairs-hicup/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-pairs-hicup/index.html index dd3280b66..ffe3db0de 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-pairs-hicup/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-fastq-to-pairs-hicup/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-juicermediumtabix-to-cool-cooler/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-juicermediumtabix-to-cool-cooler/_payload.json index f62ada17a..e4bd59a1a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-juicermediumtabix-to-cool-cooler/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-juicermediumtabix-to-cool-cooler/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004352] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573327] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-juicermediumtabix-to-cool-cooler/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-juicermediumtabix-to-cool-cooler/index.html index 20d9fdcda..397d439a4 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-juicermediumtabix-to-cool-cooler/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fhic-hicup-cooler%2Fhic-juicermediumtabix-to-cool-cooler/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-VGP1%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-VGP1%2Fmain/_payload.json index d31b4f752..5f87920f8 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-VGP1%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-VGP1%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004400] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573378] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-VGP1%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-VGP1%2Fmain/index.html index 9e4712e5a..958b9f20c 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-VGP1%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-VGP1%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-trio-VGP2%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-trio-VGP2%2Fmain/_payload.json index 49ee55937..b822f0db3 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-trio-VGP2%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-trio-VGP2%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004428] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573393] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-trio-VGP2%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-trio-VGP2%2Fmain/index.html index f207b1f64..761333dbd 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-trio-VGP2%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fkmer-profiling-hifi-trio-VGP2%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Flcms-preprocessing%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Flcms-preprocessing%2Fmain/_payload.json index 9413bd469..2031b8213 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Flcms-preprocessing%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Flcms-preprocessing%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004543] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573501] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Flcms-preprocessing%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Flcms-preprocessing%2Fmain/index.html index 0d0d7f5e9..2af02c142 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Flcms-preprocessing%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Flcms-preprocessing%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fnanopore-pre-processing%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fnanopore-pre-processing%2Fmain/_payload.json index 031c0c3b8..aa74838dd 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fnanopore-pre-processing%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fnanopore-pre-processing%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004093] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573104] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fnanopore-pre-processing%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fnanopore-pre-processing%2Fmain/index.html index da0b36ab4..64c143cdf 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fnanopore-pre-processing%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fnanopore-pre-processing%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fopenms-metaprosip%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fopenms-metaprosip%2Fmain/_payload.json index 278a39e11..130f6df52 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fopenms-metaprosip%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fopenms-metaprosip%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004083] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573094] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fopenms-metaprosip%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fopenms-metaprosip%2Fmain/index.html index e495c42c3..088583978 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fopenms-metaprosip%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fopenms-metaprosip%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fparallel-accession-download%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fparallel-accession-download%2Fmain/_payload.json index 9d335da40..879f7e43b 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fparallel-accession-download%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fparallel-accession-download%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004097] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573107] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fparallel-accession-download%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fparallel-accession-download%2Fmain/index.html index ab1452491..47b5b69dc 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fparallel-accession-download%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fparallel-accession-download%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpathogen-detection-pathogfair-samples-aggregation-and-visualisation%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpathogen-detection-pathogfair-samples-aggregation-and-visualisation%2Fmain/_payload.json index 6da14f6b9..2bc9580e8 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpathogen-detection-pathogfair-samples-aggregation-and-visualisation%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpathogen-detection-pathogfair-samples-aggregation-and-visualisation%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004090] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573100] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpathogen-detection-pathogfair-samples-aggregation-and-visualisation%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpathogen-detection-pathogfair-samples-aggregation-and-visualisation%2Fmain/index.html index 41b1edbf9..96bdb8993 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpathogen-detection-pathogfair-samples-aggregation-and-visualisation%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpathogen-detection-pathogfair-samples-aggregation-and-visualisation%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpolish-with-long-reads%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpolish-with-long-reads%2Fmain/_payload.json index ecfdc7164..1801a3742 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpolish-with-long-reads%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpolish-with-long-reads%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004294] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573281] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpolish-with-long-reads%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpolish-with-long-reads%2Fmain/index.html index 439b77e51..9cea55735 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpolish-with-long-reads%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpolish-with-long-reads%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpox-virus-amplicon%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpox-virus-amplicon%2Fmain/_payload.json index 599343745..766ae2835 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpox-virus-amplicon%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpox-virus-amplicon%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004398] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573372] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpox-virus-amplicon%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpox-virus-amplicon%2Fmain/index.html index ca09b5377..09e5aa1ff 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpox-virus-amplicon%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpox-virus-amplicon%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fprotein-ligand-complex-parameterization%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fprotein-ligand-complex-parameterization%2Fmain/_payload.json index f6a0376b0..e33ca21f9 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fprotein-ligand-complex-parameterization%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fprotein-ligand-complex-parameterization%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004289] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573271] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fprotein-ligand-complex-parameterization%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fprotein-ligand-complex-parameterization%2Fmain/index.html index cde7b3b99..008ed6279 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fprotein-ligand-complex-parameterization%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fprotein-ligand-complex-parameterization%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpseudobulk-worflow-decoupler-edger%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpseudobulk-worflow-decoupler-edger%2Fmain/_payload.json index 24225858e..1084e60bd 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpseudobulk-worflow-decoupler-edger%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpseudobulk-worflow-decoupler-edger%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004104] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573116] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpseudobulk-worflow-decoupler-edger%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpseudobulk-worflow-decoupler-edger%2Fmain/index.html index b5d85ef76..f52a08964 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpseudobulk-worflow-decoupler-edger%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fpseudobulk-worflow-decoupler-edger%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIa-import-multiplexed-se/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIa-import-multiplexed-se/_payload.json index 905f92aa4..77f785b33 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIa-import-multiplexed-se/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIa-import-multiplexed-se/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004494] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573463] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIa-import-multiplexed-se/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIa-import-multiplexed-se/index.html index 0adc60a38..e1d247cf5 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIa-import-multiplexed-se/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIa-import-multiplexed-se/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIb-import-multiplexed-pe/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIb-import-multiplexed-pe/_payload.json index 64b519e7b..fdfd2ec4d 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIb-import-multiplexed-pe/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIb-import-multiplexed-pe/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004506] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573465] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIb-import-multiplexed-pe/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIb-import-multiplexed-pe/index.html index 9bff769b2..6eca0bb9f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIb-import-multiplexed-pe/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIb-import-multiplexed-pe/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIc-import-demultiplexed-se/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIc-import-demultiplexed-se/_payload.json index bd08700a0..a3ce98a9a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIc-import-demultiplexed-se/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIc-import-demultiplexed-se/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004509] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573467] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIc-import-demultiplexed-se/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIc-import-demultiplexed-se/index.html index 885c6144e..860336e34 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIc-import-demultiplexed-se/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FIc-import-demultiplexed-se/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FId-import-demultiplexed-pe/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FId-import-demultiplexed-pe/_payload.json index 58c31059b..50e2c390d 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FId-import-demultiplexed-pe/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FId-import-demultiplexed-pe/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004526] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573474] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FId-import-demultiplexed-pe/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FId-import-demultiplexed-pe/index.html index 72cab98a9..bc3c379e9 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FId-import-demultiplexed-pe/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-I-import%2FId-import-demultiplexed-pe/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIa-denoising-se/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIa-denoising-se/_payload.json index 3eeba362f..61b33d637 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIa-denoising-se/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIa-denoising-se/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004489] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573454] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIa-denoising-se/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIa-denoising-se/index.html index fbddcdf01..cac8cb47a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIa-denoising-se/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIa-denoising-se/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIb-denoising-pe/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIb-denoising-pe/_payload.json index fa5c6f72a..a9e6a969d 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIb-denoising-pe/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIb-denoising-pe/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004492] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573461] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIb-denoising-pe/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIb-denoising-pe/index.html index c441dcff9..6046bb16a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIb-denoising-pe/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-II-denoising%2FIIb-denoising-pe/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-III-V-Phylogeny-Rarefaction-Taxonomic-Analysis/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-III-V-Phylogeny-Rarefaction-Taxonomic-Analysis/_payload.json index c855d4995..4a6115a5d 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-III-V-Phylogeny-Rarefaction-Taxonomic-Analysis/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-III-V-Phylogeny-Rarefaction-Taxonomic-Analysis/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004529] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573476] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-III-V-Phylogeny-Rarefaction-Taxonomic-Analysis/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-III-V-Phylogeny-Rarefaction-Taxonomic-Analysis/index.html index 900ac0632..09d381506 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-III-V-Phylogeny-Rarefaction-Taxonomic-Analysis/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-III-V-Phylogeny-Rarefaction-Taxonomic-Analysis/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-VI-diversity-metrics-and-estimations/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-VI-diversity-metrics-and-estimations/_payload.json index 3eae09962..5299a756a 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-VI-diversity-metrics-and-estimations/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-VI-diversity-metrics-and-estimations/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004531] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573479] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-VI-diversity-metrics-and-estimations/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-VI-diversity-metrics-and-estimations/index.html index 6d5692331..f78bf5870 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-VI-diversity-metrics-and-estimations/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fqiime2-III-VI-downsteam%2FQIIME2-VI-diversity-metrics-and-estimations/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fquality-and-contamination-control%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fquality-and-contamination-control%2Fmain/_payload.json index 61ae57ad3..02d8beab2 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fquality-and-contamination-control%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fquality-and-contamination-control%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004292] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573279] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fquality-and-contamination-control%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fquality-and-contamination-control%2Fmain/index.html index 05bac2a6f..9684751b8 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fquality-and-contamination-control%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fquality-and-contamination-control%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frepeatmasking%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frepeatmasking%2Fmain/_payload.json index 26323fd06..cd64c9be6 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frepeatmasking%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frepeatmasking%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004545] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573503] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frepeatmasking%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frepeatmasking%2Fmain/index.html index 06822f72c..756067931 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frepeatmasking%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frepeatmasking%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-de%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-de%2Fmain/_payload.json index 2f3a29968..62d2a085f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-de%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-de%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004387] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573364] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-de%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-de%2Fmain/index.html index 7b99203d4..a29ca98cb 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-de%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-de%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-pe%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-pe%2Fmain/_payload.json index f1fbb4824..2e25133ad 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-pe%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-pe%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004390] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573370] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-pe%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-pe%2Fmain/index.html index 1a9497b1f..423d7cf6d 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-pe%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-pe%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-sr%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-sr%2Fmain/_payload.json index 6f2adbce2..e18ed49ca 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-sr%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-sr%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004380] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573358] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-sr%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-sr%2Fmain/index.html index 4124269a0..9a8b5eefc 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-sr%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Frnaseq-sr%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-consensus-from-variation%2FCOVID-19-CONSENSUS-CONSTRUCTION/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-consensus-from-variation%2FCOVID-19-CONSENSUS-CONSTRUCTION/_payload.json index 1032ec9b5..2cdf3bd8f 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-consensus-from-variation%2FCOVID-19-CONSENSUS-CONSTRUCTION/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-consensus-from-variation%2FCOVID-19-CONSENSUS-CONSTRUCTION/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004224] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573217] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-consensus-from-variation%2FCOVID-19-CONSENSUS-CONSTRUCTION/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-consensus-from-variation%2FCOVID-19-CONSENSUS-CONSTRUCTION/index.html index fcc38955b..f5884e0f5 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-consensus-from-variation%2FCOVID-19-CONSENSUS-CONSTRUCTION/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-consensus-from-variation%2FCOVID-19-CONSENSUS-CONSTRUCTION/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-ont-artic-variant-calling%2FCOVID-19-ARTIC-ONT/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-ont-artic-variant-calling%2FCOVID-19-ARTIC-ONT/_payload.json index 44b83f54b..309e97bbc 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-ont-artic-variant-calling%2FCOVID-19-ARTIC-ONT/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-ont-artic-variant-calling%2FCOVID-19-ARTIC-ONT/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004212] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573207] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-ont-artic-variant-calling%2FCOVID-19-ARTIC-ONT/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-ont-artic-variant-calling%2FCOVID-19-ARTIC-ONT/index.html index 0e9fcde99..52fdbdbd4 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-ont-artic-variant-calling%2FCOVID-19-ARTIC-ONT/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-ont-artic-variant-calling%2FCOVID-19-ARTIC-ONT/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-ivar-analysis%2FSARS-COV-2-ILLUMINA-AMPLICON-IVAR-PANGOLIN-NEXTCLADE/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-ivar-analysis%2FSARS-COV-2-ILLUMINA-AMPLICON-IVAR-PANGOLIN-NEXTCLADE/_payload.json index c4e7f8e12..c782dbcd9 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-ivar-analysis%2FSARS-COV-2-ILLUMINA-AMPLICON-IVAR-PANGOLIN-NEXTCLADE/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-ivar-analysis%2FSARS-COV-2-ILLUMINA-AMPLICON-IVAR-PANGOLIN-NEXTCLADE/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004214] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573209] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-ivar-analysis%2FSARS-COV-2-ILLUMINA-AMPLICON-IVAR-PANGOLIN-NEXTCLADE/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-ivar-analysis%2FSARS-COV-2-ILLUMINA-AMPLICON-IVAR-PANGOLIN-NEXTCLADE/index.html index 5ab3f4653..c4eae1316 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-ivar-analysis%2FSARS-COV-2-ILLUMINA-AMPLICON-IVAR-PANGOLIN-NEXTCLADE/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-ivar-analysis%2FSARS-COV-2-ILLUMINA-AMPLICON-IVAR-PANGOLIN-NEXTCLADE/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-variant-calling%2FCOVID-19-PE-ARTIC-ILLUMINA/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-variant-calling%2FCOVID-19-PE-ARTIC-ILLUMINA/_payload.json index 622940f64..a63e6a347 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-variant-calling%2FCOVID-19-PE-ARTIC-ILLUMINA/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-variant-calling%2FCOVID-19-PE-ARTIC-ILLUMINA/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004221] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573215] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-variant-calling%2FCOVID-19-PE-ARTIC-ILLUMINA/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-variant-calling%2FCOVID-19-PE-ARTIC-ILLUMINA/index.html index 3b6205472..88f5057f9 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-variant-calling%2FCOVID-19-PE-ARTIC-ILLUMINA/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-artic-variant-calling%2FCOVID-19-PE-ARTIC-ILLUMINA/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
Loading...
+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-wgs-variant-calling%2FCOVID-19-PE-WGS-ILLUMINA/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-wgs-variant-calling%2FCOVID-19-PE-WGS-ILLUMINA/_payload.json index 605e09c92..b0d2c57a8 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-wgs-variant-calling%2FCOVID-19-PE-WGS-ILLUMINA/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-wgs-variant-calling%2FCOVID-19-PE-WGS-ILLUMINA/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004226] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573227] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-wgs-variant-calling%2FCOVID-19-PE-WGS-ILLUMINA/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-wgs-variant-calling%2FCOVID-19-PE-WGS-ILLUMINA/index.html index 0e4b78a66..2b56a19ce 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-wgs-variant-calling%2FCOVID-19-PE-WGS-ILLUMINA/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-pe-illumina-wgs-variant-calling%2FCOVID-19-PE-WGS-ILLUMINA/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
Contribute GitHub
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- \ No newline at end of file + + + + +
IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-se-illumina-wgs-variant-calling%2FCOVID-19-SE-WGS-ILLUMINA/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-se-illumina-wgs-variant-calling%2FCOVID-19-SE-WGS-ILLUMINA/_payload.json index ef240981a..a08400c37 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-se-illumina-wgs-variant-calling%2FCOVID-19-SE-WGS-ILLUMINA/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-se-illumina-wgs-variant-calling%2FCOVID-19-SE-WGS-ILLUMINA/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004217] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573211] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-se-illumina-wgs-variant-calling%2FCOVID-19-SE-WGS-ILLUMINA/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-se-illumina-wgs-variant-calling%2FCOVID-19-SE-WGS-ILLUMINA/index.html index 2cb39c20f..d3a5f6f5e 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-se-illumina-wgs-variant-calling%2FCOVID-19-SE-WGS-ILLUMINA/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-se-illumina-wgs-variant-calling%2FCOVID-19-SE-WGS-ILLUMINA/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-variation-reporting%2FCOVID-19-VARIATION-REPORTING/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-variation-reporting%2FCOVID-19-VARIATION-REPORTING/_payload.json index 1f71cc0e3..a42cf1aa4 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-variation-reporting%2FCOVID-19-VARIATION-REPORTING/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-variation-reporting%2FCOVID-19-VARIATION-REPORTING/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004219] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573213] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-variation-reporting%2FCOVID-19-VARIATION-REPORTING/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-variation-reporting%2FCOVID-19-VARIATION-REPORTING/index.html index c82ce2c55..3c36a16a6 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-variation-reporting%2FCOVID-19-VARIATION-REPORTING/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsars-cov-2-variation-reporting%2FCOVID-19-VARIATION-REPORTING/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsra-manifest-to-concatenated-fastqs%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsra-manifest-to-concatenated-fastqs%2Fmain/_payload.json index f9990a6b3..062cd7807 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsra-manifest-to-concatenated-fastqs%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsra-manifest-to-concatenated-fastqs%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004099] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573109] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsra-manifest-to-concatenated-fastqs%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsra-manifest-to-concatenated-fastqs%2Fmain/index.html index 442bef345..9e201e4c5 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsra-manifest-to-concatenated-fastqs%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fsra-manifest-to-concatenated-fastqs%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ftaxonomy-profiling-and-visualization-with-krona%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ftaxonomy-profiling-and-visualization-with-krona%2Fmain/_payload.json index 49248ec5c..3485fd7af 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ftaxonomy-profiling-and-visualization-with-krona%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ftaxonomy-profiling-and-visualization-with-krona%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004095] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573105] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ftaxonomy-profiling-and-visualization-with-krona%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ftaxonomy-profiling-and-visualization-with-krona%2Fmain/index.html index fc081e1e0..c9cb0ee55 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ftaxonomy-profiling-and-visualization-with-krona%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Ftaxonomy-profiling-and-visualization-with-krona%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvariation-reporting%2Fmain/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvariation-reporting%2Fmain/_payload.json index 9d84dadc6..c760bc1cd 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvariation-reporting%2Fmain/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvariation-reporting%2Fmain/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004479] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573448] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvariation-reporting%2Fmain/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvariation-reporting%2Fmain/index.html index 0fd527acc..829553ea1 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvariation-reporting%2Fmain/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvariation-reporting%2Fmain/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-filtered-barcodes/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-filtered-barcodes/_payload.json index 11ad63fa1..c4005018b 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-filtered-barcodes/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-filtered-barcodes/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004204] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573194] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-filtered-barcodes/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-filtered-barcodes/index.html index 90b211915..94dc816a4 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-filtered-barcodes/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-filtered-barcodes/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-from-bundled/_payload.json b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-from-bundled/_payload.json index 65b2d5219..9b01a9236 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-from-bundled/_payload.json +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-from-bundled/_payload.json @@ -1 +1 @@ -[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732633004201] \ No newline at end of file +[{"data":1,"prerenderedAt":3},["Reactive",2],{},1732797573192] \ No newline at end of file diff --git a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-from-bundled/index.html b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-from-bundled/index.html index 894bf2344..8627a30ea 100644 --- a/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-from-bundled/index.html +++ b/workflow/%23workflow%2Fgithub.com%2Fiwc-workflows%2Fvelocyto%2FVelocyto-on10X-from-bundled/index.html @@ -34,17 +34,17 @@ } - + - - - + + + - - - - -
IWC Logo Galaxy IWC - Workflow Library
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IWC Logo Galaxy IWC - Workflow Library
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+ \ No newline at end of file diff --git a/workflow_manifest.json b/workflow_manifest.json index 80bbab516..5adfb2095 100644 --- a/workflow_manifest.json +++ b/workflow_manifest.json @@ -46059,7 +46059,7 @@ ], "format-version": "0.1", "license": "MIT", - "release": "0.17", + "release": "1.0", "name": "ATACseq", "steps": { "0": { @@ -46305,7 +46305,7 @@ "owner": "devteam", "tool_shed": "toolshed.g2.bx.psu.edu" }, - "tool_state": "{\"__job_resource\": {\"__current_case__\": 0, \"__job_resource__select\": \"no\"}, \"analysis_type\": {\"analysis_type_selector\": \"simple\", \"__current_case__\": 0, \"presets\": \"--very-sensitive\"}, \"library\": {\"type\": \"paired_collection\", \"__current_case__\": 2, \"input_1\": {\"__class__\": \"ConnectedValue\"}, \"unaligned_file\": false, \"aligned_file\": false, \"paired_options\": {\"paired_options_selector\": \"no\", \"__current_case__\": 1}}, \"reference_genome\": {\"source\": \"indexed\", \"__current_case__\": 0, \"index\": {\"__class__\": \"ConnectedValue\"}}, \"rg\": {\"rg_selector\": \"do_not_set\", \"__current_case__\": 3}, \"sam_options\": {\"sam_options_selector\": \"no\", \"__current_case__\": 1}, \"save_mapping_stats\": true, \"__page__\": null, \"__rerun_remap_job_id__\": null}", + "tool_state": "{\"analysis_type\": {\"analysis_type_selector\": \"simple\", \"__current_case__\": 0, \"presets\": \"--very-sensitive\"}, \"library\": {\"type\": \"paired_collection\", \"__current_case__\": 2, \"input_1\": {\"__class__\": \"RuntimeValue\"}, \"unaligned_file\": false, \"aligned_file\": false, \"paired_options\": {\"paired_options_selector\": \"yes\", \"__current_case__\": 0, \"I\": \"0\", \"X\": \"1000\", \"fr_rf_ff\": \"--fr\", \"no_mixed\": false, \"no_discordant\": false, \"dovetail\": true, \"no_contain\": false, \"no_overlap\": false}}, \"reference_genome\": {\"source\": \"indexed\", \"__current_case__\": 0, \"index\": {\"__class__\": \"ConnectedValue\"}}, \"rg\": {\"rg_selector\": \"do_not_set\", \"__current_case__\": 3}, \"sam_options\": {\"sam_options_selector\": \"no\", \"__current_case__\": 1}, \"save_mapping_stats\": true, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "2.5.3+galaxy1", "type": "tool", "uuid": "c32a3847-f673-487f-af98-8d50999f2d21", @@ -46481,15 +46481,15 @@ "uuid": "d0a9998c-18a9-4579-8d33-f0897e1ceaeb", "when": null, "workflow_outputs": [ - { - "label": "BAM filtered rmDup", - "output_name": "outFile", - "uuid": "5f4d5cc5-c2f2-40f3-b941-df5dd7347d25" - }, { "label": "MarkDuplicates metrics", "output_name": "metrics_file", "uuid": "144745aa-8898-45e6-a328-53e2518202b9" + }, + { + "label": "BAM filtered rmDup", + "output_name": "outFile", + "uuid": "5f4d5cc5-c2f2-40f3-b941-df5dd7347d25" } ] }, @@ -46847,12 +46847,7 @@ "output_name": "output2" } }, - "inputs": [ - { - "description": "runtime parameter for tool Search in textfiles", - "name": "infile" - } - ], + "inputs": [], "label": "remove comments lines", "name": "Search in textfiles", "outputs": [ @@ -46873,7 +46868,7 @@ "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, - "tool_state": "{\"case_sensitive\": \"-i\", \"color\": \"NOCOLOR\", \"infile\": {\"__class__\": \"RuntimeValue\"}, \"invert\": \"-v\", \"lines_after\": \"0\", \"lines_before\": \"0\", \"regex_type\": \"-P\", \"url_paste\": \"^#\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", + "tool_state": "{\"case_sensitive\": \"-i\", \"color\": \"NOCOLOR\", \"infile\": {\"__class__\": \"ConnectedValue\"}, \"invert\": \"-v\", \"lines_after\": \"0\", \"lines_before\": \"0\", \"regex_type\": \"-P\", \"url_paste\": \"^#\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "9.3+galaxy1", "type": "tool", "uuid": "c06960f8-9d4e-483e-8f07-12976f8b802a", @@ -47757,11 +47752,11 @@ "tags": [ "ATACseq" ], - "uuid": "9debc3c9-ccbd-4ce6-a7de-80580e663cac", + "uuid": "747f2432-7493-44b8-a5ee-82d104407cad", "version": 1 }, "readme": "# ATACseq Workflow\n\nThis workflow is highly concordant with the corresponding training material.\nYou can have more information about ATAC-seq analysis in the [slides](https://training.galaxyproject.org/training-material/topics/epigenetics/tutorials/atac-seq/slides.html) and the [tutorial](https://training.galaxyproject.org/training-material/topics/epigenetics/tutorials/atac-seq/tutorial.html).\n\n## Inputs dataset\n\n- The workflow needs a single input which is a list of dataset pairs of fastqsanger.\n\n## Inputs values\n\n- reference_genome: this field will be adapted to the genomes available for bowtie2 and the genomes available for bedtools slopbed (dbkeys table)\n- effective_genome_size: this is used by macs2 and may be entered manually (indications are provided for heavily used genomes)\n- bin_size: this is used when normalization of coverage is performed. Large values will allow to have smaller output files but with less resolution while small values will increase computation time and size of output files to produce more resolutive bigwigs.\n\n## Processing\n\n- The workflow will remove nextera adapters and low quality bases and filter out any read smaller than 15bp.\n- The filtered reads are mapped with bowtie2 allowing dovetail and fragment length up to 1kb.\n- The BAM is filtered to keep only MAPQ30, concordant pairs and pairs outside of the mitochondria.\n- The PCR duplicates are removed with Picard (only from version 0.8).\n- The BAM is converted to BED to enable macs2 to take both pairs into account.\n- The peaks are called with macs2 which at the same time generates a coverage file.\n- The coverage file is converted to bigwig\n- The amount of reads 500bp from summits and the total number of reads are computed.\n- Two normalizations are computed:\n - By million reads\n - By million reads in peaks (500bp from summits)\n- Other QC are performed:\n - A histogram with fragment length is computed.\n - The evaluation of percentage of reads to chrM or MT is computed.\n- A multiQC is run to have an overview of the QC.\n\n### Warning\n\n- The `reference_genome` parameter value is used to select references in bowtie2 and bedtools slopbed. Only references that are present in bowtie2 **and** bedtools slopbed are selectable. If your favorite reference genome is not available ask your administrator to make sure that each bowtie2 reference has a corresponding len file for use in bedtools slopbed.\n", - "changelog": "# Changelog\n\n## [0.17] 2024-09-23\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.20+galaxy3`\n- `toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/2.0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/2.1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.24.1+galaxy0`\n\n### Manual update\n- Add a step to remove comments lines from histogram to be compatible with new multiQC version\n\n## [0.16] 2024-07-15\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy0`\n\n## [0.15] 2024-05-27\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.30.0+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.31.1+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.30.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.31.1+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_mergebed/2.30.0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_mergebed/2.31.1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.31.1+galaxy0`\n\n## [0.14] 2024-04-22\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.7+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy0`\n\n## [0.13] 2024-04-08\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy1`\n\n## [0.12] 2024-03-25\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.6+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.7+galaxy0`\n\n## [0.11] 2024-03-18\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy2`\n\n## [0.10] 2024-03-14\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.4+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.6+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.4` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.5`\n- `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.4` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/3.1.1.0`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/1.1.2` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy2`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/1.1.1` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0`\n\n## [0.9] 2023-10-23\n\nFix the normalization factor. It was coverage per reads and per reads in peaks instead of per million reads and per million reads in peaks.\n\n## [0.8] 2023-10-19\n\nFix the remove duplicate step!\nIn all previous versions, due to an error, PCR duplicates were not removed.\n\n## [0.7] 2023-10-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.2.7.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.2.9.1+galaxy0`\n\n## [0.6] 2023-09-27\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.2+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.4+galaxy0`\n\n## [0.5.1] 2023-09-22\n\nFix bug in normalize profiles when used with multiple samples (in 0.5.0 it is averaging samples instead of normalizing each sample).\n\n## [0.5] 2023-03-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.3` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.4`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.4+galaxy0`\n\n### Manual update\n- add normalization steps for coverage\n\n## [0.4] 2023-01-16\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy1`\n\n## [0.3] 2022-12-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy1`\n\n## [0.2] 2022-11-28\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.4.5+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.0+galaxy0`\n\n## [0.1] 2022-10-12\nFirst release.\n", + "changelog": "# Changelog\n\n## [1.0] 2024-11-28\n\n### Manual update\n\nUse the options like written in the README: in all previous versions, bowtie2 was running with `--very-sensitive` option but without allowing dovetail and without fragment length up to 1kb. Bowtie2 has been adjusted and is now running with these options: allow dovetail and fragment length up to 1kb.\n\n## [0.17] 2024-09-23\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.20+galaxy3`\n- `toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/2.0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/2.1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.24.1+galaxy0`\n\n### Manual update\n- Add a step to remove comments lines from histogram to be compatible with new multiQC version\n\n## [0.16] 2024-07-15\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.9+galaxy0`\n\n## [0.15] 2024-05-27\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.30.0+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_bamtobed/2.31.1+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.30.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_slopbed/2.31.1+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_mergebed/2.30.0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_mergebed/2.31.1`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.31.1+galaxy0`\n\n## [0.14] 2024-04-22\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.7+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.8+galaxy0`\n\n## [0.13] 2024-04-08\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy1`\n\n## [0.12] 2024-03-25\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.6+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.7+galaxy0`\n\n## [0.11] 2024-03-18\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy2`\n\n## [0.10] 2024-03-14\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.4+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.6+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.3+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.4` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.5`\n- `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.4` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/3.1.1.0`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/1.1.2` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0`\n- `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/samtools_view/samtools_view/1.15.1+galaxy2`\n- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/1.1.1` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0`\n\n## [0.9] 2023-10-23\n\nFix the normalization factor. It was coverage per reads and per reads in peaks instead of per million reads and per million reads in peaks.\n\n## [0.8] 2023-10-19\n\nFix the remove duplicate step!\nIn all previous versions, due to an error, PCR duplicates were not removed.\n\n## [0.7] 2023-10-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.2.7.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/macs2/macs2_callpeak/2.2.9.1+galaxy0`\n\n## [0.6] 2023-09-27\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.2+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/deeptools_bigwig_average/deeptools_bigwig_average/3.5.4+galaxy0`\n\n## [0.5.1] 2023-09-22\n\nFix bug in normalize profiles when used with multiple samples (in 0.5.0 it is averaging samples instead of normalizing each sample).\n\n## [0.5] 2023-03-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.3` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.4`\n- `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/bedtools/bedtools_coveragebed/2.30.0+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.4+galaxy0`\n\n### Manual update\n- add normalization steps for coverage\n\n## [0.4] 2023-01-16\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bamtools_filter/bamFilter/2.5.2+galaxy1`\n\n## [0.3] 2022-12-17\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.11+galaxy1`\n\n## [0.2] 2022-11-28\n\n### Automatic update\n- `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/lparsons/cutadapt/cutadapt/4.0+galaxy1`\n- `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.4.5+galaxy1` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.0+galaxy0`\n\n## [0.1] 2022-10-12\nFirst release.\n", "trsID": "#workflow/github.com/iwc-workflows/atacseq/main", "tests": [ { @@ -47803,15 +47798,15 @@ "asserts": [ { "that": "has_text", - "text": "30410 (10.82%) aligned concordantly 0 times" + "text": "7282 (2.59%) aligned concordantly 0 times" }, { "that": "has_text", - "text": "109333 (38.91%) aligned concordantly exactly 1 time" + "text": "121059 (43.09%) aligned concordantly exactly 1 time" }, { "that": "has_text", - "text": "141221 (50.26%) aligned concordantly >1 times" + "text": "152623 (54.32%) aligned concordantly >1 times" } ] } @@ -47833,7 +47828,7 @@ "SRR891268_chr22_enriched": { "asserts": { "has_size": { - "value": 14134105, + "value": 15810403, "delta": 1000000 } } @@ -47857,7 +47852,7 @@ "SRR891268_chr22_enriched": { "asserts": { "has_n_lines": { - "n": 223 + "n": 236 } } } @@ -47873,7 +47868,7 @@ }, { "that": "has_text", - "text": "# total tags in treatment: 232804" + "text": "# total tags in treatment: 262080" } ] } @@ -47884,7 +47879,7 @@ "SRR891268_chr22_enriched": { "asserts": { "has_size": { - "value": 2594908, + "value": 2892925, "delta": 200000 } } @@ -47896,7 +47891,7 @@ "SRR891268_chr22_enriched": { "asserts": { "has_n_lines": { - "n": 211 + "n": 217 } } } @@ -47907,7 +47902,7 @@ "SRR891268_chr22_enriched": { "asserts": { "has_line": { - "line": "8698" + "line": "9548" } } } @@ -47918,7 +47913,7 @@ "SRR891268_chr22_enriched": { "asserts": { "has_size": { - "value": 1130014, + "value": 1253177, "delta": 100000 } } @@ -47930,7 +47925,7 @@ "SRR891268_chr22_enriched": { "asserts": { "has_size": { - "value": 1133795, + "value": 1248419, "delta": 100000 } } @@ -47943,7 +47938,7 @@ "line": "Sample\tMACS2_mqc_generalstats_macs2_d\tMACS2_mqc_generalstats_macs2_peak_count\tPicard: Mark Duplicates_mqc_generalstats_picard_mark_duplicates_PERCENT_DUPLICATION\tBowtie 2 / HiSAT2_mqc_generalstats_bowtie_2_hisat2_overall_alignment_rate\tCutadapt_mqc_generalstats_cutadapt_percent_trimmed" }, "has_text_matching": { - "expression": "SRR891268_chr22_enriched\t200.0\t223\t2.8[0-9]*\t98.[0-9]*\t4.7[0-9]*" + "expression": "SRR891268_chr22_enriched\t200.0\t236\t2.7[0-9]*\t98.[0-9]*\t4.7[0-9]*" } } },