Assorted scripts in Perl, Bash, R and whatsoever directly from a bioinformaticians scripts/ folder
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.gitignore Initial commit May 3, 2016
README.md Initial commit into the new personal scripts repository May 4, 2016
biodb_genome_downloader.sh Updating required slurm resources Jul 30, 2018
biomart_retrieve_rRNA.pl Updating slurm scripts Jul 30, 2018
mikes-complex-slurm-caller.sh 2017-11-29 MPR: Added common directory for importing functions Nov 29, 2017
random_downsample_bam.sh Adding script to randomly down-sample a BAM file Jan 31, 2017
rename_raw_file.pl Initial commit into the new personal scripts repository May 4, 2016
slurm_7z_gz_test.sh Syncing several new slurm scripts Jul 28, 2018
slurm_albacore.sh Syncing several new slurm scripts Jul 28, 2018
slurm_ballgown.sh Added slurm wrapper for ballgown Jan 31, 2017
slurm_bowtie2_rRNA_filter_paired.sh Updating slurm scripts Jul 30, 2018
slurm_bowtie2_rRNA_filter_single.sh Initial version of the single end read rRNA bowtie filter script May 6, 2016
slurm_circtools_detect_paired.sh Adding new circtools slurm scripts Jul 30, 2018
slurm_circtools_detect_paired_mapping.sh Switching to new version of circtools detect script Sep 17, 2018
slurm_circtools_detect_paired_mapping_old.sh Switching to new version of circtools detect script Sep 17, 2018
slurm_circtools_enrich_exon.sh Syncing several new slurm scripts Jul 28, 2018
slurm_circtools_enrich_gene.sh Syncing several new slurm scripts Jul 28, 2018
slurm_circtools_enrich_intron.sh Updating circtools enrich submission script Aug 1, 2018
slurm_circtools_reconstruct.sh Adding new circtools slurm scripts Jul 30, 2018
slurm_circtools_reconstruct_DL.sh Adding circtools script for default pipeline Jul 30, 2018
slurm_circtools_reconstruct_denovo.sh Adding new circtools slurm scripts Jul 30, 2018
slurm_fastqc.sh Added slurm fastqc wrapper Jan 31, 2017
slurm_featurecount_paired.sh Syncing several new slurm scripts Jul 28, 2018
slurm_flexbar_paired.sh Updating slurm scripts Jul 30, 2018
slurm_flexbar_single.sh -J sbatch parameter now uses "" for job name May 4, 2016
slurm_fuchs_denovo.sh Syncing several new slurm scripts Jul 28, 2018
slurm_fuchs_workflow_paired.sh Syncing several new slurm scripts Jul 28, 2018
slurm_htseq.sh Syncing several new slurm scripts Jul 28, 2018
slurm_jacusa.sh Updating JACUSA to 1.2.3 Aug 14, 2018
slurm_jacusa2.sh Syncing several new slurm scripts Jul 28, 2018
slurm_jacusa_call1.sh Syncing several new slurm scripts Jul 28, 2018
slurm_markcuplicated_picard.sh Syncing several new slurm scripts Jul 28, 2018
slurm_rar.sh Syncing several new slurm scripts Jul 28, 2018
slurm_star_dcc_mates.sh Syncing several new slurm scripts Jul 28, 2018
slurm_star_paired.sh Updating slurm scripts Jul 30, 2018
slurm_stringtie.sh Updating slurm scripts Jul 30, 2018
slurm_subread.sh Syncing several new slurm scripts Jul 28, 2018

README.md

bioinfo-scripts

My personal collection of (mostly) bioinformatics-related scripts.

Scripts are usually CC BY-NC-SA and written in Perl, Bash, and whatever was just available.