.tt_blacklist

tools/ccat
tools/sam_pileup
tools/dwt_cor_ava_perclass
tools/trimmer
tools/gmaj
tools/dna_filtering
tools/varscan_version_2
tools/compute_q_values
tools/change_case
tools/maf_cpg_filter
tools/kernel_canonical_correlation_analysis
tools/ucsc_custom_track
tools/split_paired_reads
tools/divide_pg_snp
tools/mine
tools/mutate_snp_codon
tools/blat_coverage_report
tools/tophat
tools/show_beginning
tools/dwt_ivc_all
tools/categorize_elements_satisfying_criteria
tools/short_reads_trim_seq
tools/cd_hit_dup
tools/filter_transcripts_via_tracking
tools/rcve
tools/substitution_rates
tools/principal_component_analysis
tools/featurecounter
tools/getindels_2way
tools/emboss_5
tools/scatterplot
tools/lda_analysis
tools/ctd_batch
tools/generate_pc_lda_matrix
tools/convert_solid_color2nuc
tools/tabular_to_fasta
tools/getindelrates_3way
tools/sam_merge
tools/weblogo3
tools/xy_plot
tools/indels_3way
tools/macs
tools/microsats_mutability
tools/cummerbund
tools/fastqsolexa_to_fasta_qual
tools/picard
tools/pileup_interval
tools/velvet
tools/microsatellite_birthdeath
tools/express
tools/canonical_correlation_analysis
tools/vcf_intersect
tools/dwt_var_perfeature
tools/best_regression_subsets
tools/tophat2
tools/plot_from_lda
tools/count_gff_features
tools/dwt_cor_avb_all
tools/partialr_square
tools/blat_mapping
tools/mapping_to_ucsc
tools/sam_bitwise_flag_filter
tools/rmap
tools/weightedaverage
tools/annotation_profiler
tools/megablast_xml_parser
tools/correlation
tools/merge_cols
tools/microsats_alignment_level
tools/bowtie_color_wrappers
tools/vcf2pgsnp
tools/fasta_concatenate_by_species
tools/quality_filter
tools/vcf_annotate
tools/megablast_wrapper
tools/sicer
tools/compute_motif_frequencies_for_all_motifs
tools/compute_motifs_frequency
tools/rmapq
tools/show_tail
tools/pileup_parser
tools/table_annovar
tools/lastz_paired_reads
tools/bowtie_wrappers
tools/t_test_two_samples
tools/logistic_regression_vif
tools/vcf_filter
tools/hisat
tools/sam2interval
tools/tophat_fusion_post
tools/short_reads_figure_high_quality_length
tools/short_reads_figure_score
tools/draw_stacked_barplots
tools/pgsnp2gd_snp
tools/pearson_correlation
tools/fasta_filter_by_length
tools/dwt_var_perclass
tools/linear_regression
tools/fasta_to_tabular
tools/fastq_trimmer_by_quality
tools/dgidb_annotator
tools/clustalw
tools/cummerbund_to_tabular
tools/kernel_principal_component_analysis
tools/multispecies_orthologous_microsats
tools/vcf_extract
tools/delete_overlapping_indels
tools/freebayes
tools/fasta_compute_length
tools/histogram
tool_collections/galaxy_sequence_utils/fastq_groomer
tool_collections/galaxy_sequence_utils/fastq_paired_end_deinterlacer
tool_collections/galaxy_sequence_utils/fastq_manipulation
tool_collections/galaxy_sequence_utils/fastq_combiner
tool_collections/galaxy_sequence_utils/fastq_trimmer
tool_collections/galaxy_sequence_utils/fastq_masker_by_quality
tool_collections/galaxy_sequence_utils/fastq_stats
tool_collections/galaxy_sequence_utils/fastq_paired_end_splitter
tool_collections/galaxy_sequence_utils/fastq_to_tabular
tool_collections/galaxy_sequence_utils/fastqtofasta
tool_collections/galaxy_sequence_utils/tabular_to_fastq
tool_collections/galaxy_sequence_utils/fastq_filter
tool_collections/galaxy_sequence_utils/fastq_paired_end_joiner
tool_collections/gops/concat
tool_collections/gops/merge
tool_collections/gops/get_flanks
tool_collections/gops/flanking_features
tool_collections/gops/basecoverage
tool_collections/gops/cluster
tool_collections/gops/subtract
tool_collections/gops/tables_arithmetic_operations
tool_collections/gops/complement
tool_collections/gops/coverage
tool_collections/gops/join
tool_collections/gops/intersect
tool_collections/gops/subtract_query
tool_collections/vcflib/vcfannotategenotypes
tool_collections/vcflib/vcfprimers
tool_collections/vcflib/vcfcommonsamples
tool_collections/vcflib/vcfflatten
tool_collections/vcflib/vcfcombine
tool_collections/vcflib/vcfsort
tool_collections/vcflib/vcfselectsamples
tool_collections/vcflib/vcfbreakcreatemulti
tool_collections/vcflib/vcfleftalign
tool_collections/vcflib/vcf2tsv
tool_collections/vcflib/vcfcheck
tool_collections/vcflib/vcfdistance
tool_collections/vcflib/vcfgeno2haplo
tool_collections/vcflib/vcffixup
tool_collections/vcflib/vcfaddinfo
tool_collections/vcflib/vcffilter
tool_collections/vcflib/vcfbedintersect
tool_collections/vcflib/vcfallelicprimitives
tool_collections/vcflib/vcfgenotypes
tool_collections/vcflib/vcfrandomsample
tool_collections/vcflib/vcfvcfintersect
tool_collections/vcflib/vcfannotate
tool_collections/vcflib/vcfhethom
tool_collections/hgv/hgv_hilbertvis
tool_collections/hgv/snpfreq
tool_collections/hgv/hgv_fundo
tool_collections/vcftools/vcftools_compare
tool_collections/vcftools/vcftools_slice
tool_collections/vcftools/vcftools_merge
tool_collections/vcftools/vcftools_subset
tool_collections/vcftools/vcftools_annotate
tool_collections/vcftools/vcftools_isec
tool_collections/fastx_toolkit/fastq_quality_converter
tool_collections/fastx_toolkit/fasta_clipping_histogram
tool_collections/fastx_toolkit/fastx_nucleotides_distribution
tool_collections/fastx_toolkit/fastx_trimmer
tool_collections/fastx_toolkit/fastx_clipper
tool_collections/fastx_toolkit/fastx_artifacts_filter
tool_collections/fastx_toolkit/fastx_barcode_splitter
tool_collections/fastx_toolkit/fastq_quality_filter
tool_collections/fastx_toolkit/fastx_renamer
tool_collections/fastx_toolkit/fastx_quality_statistics
tool_collections/fastx_toolkit/fasta_formatter
tool_collections/fastx_toolkit/fastq_quality_boxplot
tool_collections/fastx_toolkit/fasta_nucleotide_changer
tool_collections/fastx_toolkit/fastq_to_fasta
tool_collections/fastx_toolkit/fastx_collapser
tool_collections/fastx_toolkit/fastx_reverse_complement
tool_collections/gatk/variant_annotator
tool_collections/gatk/variant_apply_recalibration
tool_collections/gatk/count_covariates
tool_collections/gatk/variant_recalibrator
tool_collections/gatk/realigner_target_creator
tool_collections/gatk/table_recalibration
tool_collections/gatk/variant_select
tool_collections/gatk/variants_validate
tool_collections/gatk/variant_filtration
tool_collections/gatk/indel_realigner
tool_collections/gatk/analyze_covariates
tool_collections/gatk/unified_genotyper
tool_collections/gatk/variant_combine
tool_collections/gatk/print_reads
tool_collections/gatk/variant_eval
tool_collections/gatk/depth_of_coverage
tool_collections/taxonomy/lca_wrapper
tool_collections/taxonomy/poisson2test
tool_collections/taxonomy/t2t_report
tool_collections/taxonomy/gi2taxonomy
tool_collections/taxonomy/kraken2tax
tool_collections/taxonomy/t2ps
tool_collections/taxonomy/find_diag_hits
tool_collections/bamtools/bamtools_split
tool_collections/bamtools/bamtools_filter
tool_collections/bamtools/bamtools