Create normalized RNA-seq bigwiggle files¶
Input¶
The input file is a tsv format containing 2 columns: bam, sample name.
Output¶
BW files are generated in the job ID folder
Usage¶
Copy your bam files together with their index files .bam.bai into your working directory.
# if you haven't logged into compute node, please do hpcf_interactive
module load python/2.7.13
# generate input.tsv
run_lsf.py --guess_input --general --file_pattern bam --replace_name ".bam"
# submit jobs
run_lsf.py -f input.tsv -p rna_bw_rpm