python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py AAEGY-1-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-AAEGY-1 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Insects/Aedes_aegypti/Aedes_aegypti.AaegL1.20.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py AAEGY-2-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-AAEGY-2 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Insects/Aedes_aegypti/Aedes_aegypti.AaegL1.20.chrom.sizes  samtools -paired