python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py S_cerevisiae_WT_PROcap-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-S_cerevisiae_WT_PROcap -bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes  samtools -paired