python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py TSS_tur1delta_30E_merged-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-TSS_tur1delta_30E_merged -bam /oak/stanford/groups/akundaje/marinovg/genomes/Fungi/Cryptococcus_neoformans/Cryptococcus_neoformans.GCA_000091045.1.20.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py TSS_tur1delta_30E_rep_1-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-TSS_tur1delta_30E_rep_1 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Fungi/Cryptococcus_neoformans/Cryptococcus_neoformans.GCA_000091045.1.20.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py TSS_tur1delta_30E_rep_2-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-TSS_tur1delta_30E_rep_2 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Fungi/Cryptococcus_neoformans/Cryptococcus_neoformans.GCA_000091045.1.20.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py TSS_tur1delta_30E_rep_3-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-TSS_tur1delta_30E_rep_3 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Fungi/Cryptococcus_neoformans/Cryptococcus_neoformans.GCA_000091045.1.20.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py TSS_tur1delta_30S_merged-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-TSS_tur1delta_30S_merged -bam /oak/stanford/groups/akundaje/marinovg/genomes/Fungi/Cryptococcus_neoformans/Cryptococcus_neoformans.GCA_000091045.1.20.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py TSS_tur1delta_30S_rep_1-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-TSS_tur1delta_30S_rep_1 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Fungi/Cryptococcus_neoformans/Cryptococcus_neoformans.GCA_000091045.1.20.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py TSS_tur1delta_30S_rep_2-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-TSS_tur1delta_30S_rep_2 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Fungi/Cryptococcus_neoformans/Cryptococcus_neoformans.GCA_000091045.1.20.chrom.sizes  samtools -paired 
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py TSS_tur1delta_30S_rep_3-STAR-2.5.3a/STAR-2.5.3a-Aligned.sortedByCoord.out.bam  SAMstats-TSS_tur1delta_30S_rep_3 -bam /oak/stanford/groups/akundaje/marinovg/genomes/Fungi/Cryptococcus_neoformans/Cryptococcus_neoformans.GCA_000091045.1.20.chrom.sizes  samtools -paired