python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py WT_12hpf-GSM3141415-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-WT_12hpf-GSM3141415 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Fishes/danRer11/danRer11_no_alt.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py WT_12hpf_2-GSM4144776-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-WT_12hpf_2-GSM4144776 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Fishes/danRer11/danRer11_no_alt.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py WT_16hpf-GSM3141416-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-WT_16hpf-GSM3141416 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Fishes/danRer11/danRer11_no_alt.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py WT_16hpf_2-GSM4144777-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-WT_16hpf_2-GSM4144777 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Fishes/danRer11/danRer11_no_alt.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py sa37_12hpf-GSM3141417-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-sa37_12hpf-GSM3141417 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Fishes/danRer11/danRer11_no_alt.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py sa37_12hpf_2-GSM4144778-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-sa37_12hpf_2-GSM4144778 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Fishes/danRer11/danRer11_no_alt.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py sa37_16hpf-GSM3141418-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-sa37_16hpf-GSM3141418 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Fishes/danRer11/danRer11_no_alt.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py sa37_16hpf_2-GSM4144779-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-sa37_16hpf_2-GSM4144779 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Fishes/danRer11/danRer11_no_alt.chrom.sizes  samtools -paired