palma

Collection of useful SLURM scripts for various bioinformatic pipelines running on the PALMA-II HPC cluster.

Name		Name	Last commit message	Last commit date
Latest commit History 12 Commits
.vscode		.vscode
cnv_pipeline		cnv_pipeline
README.md		README.md
arriba.sh		arriba.sh
bam2fastq.sh		bam2fastq.sh
cnv_plot.R		cnv_plot.R
decomp.R		decomp.R
decomp.sh		decomp.sh
decomp_summarize_results.Rmd		decomp_summarize_results.Rmd
gene_expression_analysis.Rmd		gene_expression_analysis.Rmd
genome_alignment.sh		genome_alignment.sh
kraken_large_files.sh		kraken_large_files.sh
metagenomics_pipeline.sh		metagenomics_pipeline.sh
metaphlan.sh		metaphlan.sh
ngs_pipeline.sh		ngs_pipeline.sh
parallel_download.sh		parallel_download.sh
rna_seq_star_feature_counts_single_end.sh		rna_seq_star_feature_counts_single_end.sh
run_rnb.R		run_rnb.R
run_rnb.sh		run_rnb.sh
run_salmon.sh		run_salmon.sh
salmon_paired_end.sh		salmon_paired_end.sh
salmon_single_end.sh		salmon_single_end.sh
scramble_pipeline.sh		scramble_pipeline.sh
sturgeon_pipeline.sh		sturgeon_pipeline.sh

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