python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py RPC128-FLAG_IP_Normal_Growth_Replicate2-GSM971758/all.1x36mers.a.bam SAMstats-RPC128-FLAG_IP_Normal_Growth_Replicate2-GSM971758.a -bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired   
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py RPC128-FLAG_IP_Normal_Growth_Replicate1-GSM971757/all.1x36mers.a.bam SAMstats-RPC128-FLAG_IP_Normal_Growth_Replicate1-GSM971757.a -bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired   
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py RPC128-FLAG_MOCK_Normal_Growth-GSM971759/all.1x36mers.a.bam SAMstats-RPC128-FLAG_MOCK_Normal_Growth-GSM971759.a -bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired   
python ~/code/makewigglefromBAM-NH.py --- RPC128-FLAG_IP_Normal_Growth_Replicate2-GSM971758/all.1x36mers.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes RPC128-FLAG_IP_Normal_Growth_Replicate2-GSM971758/all.1x36mers.a.wig -notitle -RPM 
python ~/code/makewigglefromBAM-NH.py --- RPC128-FLAG_IP_Normal_Growth_Replicate1-GSM971757/all.1x36mers.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes RPC128-FLAG_IP_Normal_Growth_Replicate1-GSM971757/all.1x36mers.a.wig -notitle -RPM 
python ~/code/makewigglefromBAM-NH.py --- RPC128-FLAG_MOCK_Normal_Growth-GSM971759/all.1x36mers.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes RPC128-FLAG_MOCK_Normal_Growth-GSM971759/all.1x36mers.a.wig -notitle -RPM