1: run trimmomatic
15.02.17.trimmomatic_array.sh
2: run bwa mem, merge and index bams
bwa_mem_paired_array.sh
bwa_mem_unpaired_array.sh
mergebams.sh
indexbam.sh
3: run featurecounts
15.11.13.featurecounts.sh
4: analyze counts in edgeR
osmotic_edgeR_script.R
5: make some plots
osmotic_edgeR_plots.R