python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL11A.1x36mers.unique.bam SAMstats-SPL11A.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL11B.1x36mers.unique.bam SAMstats-SPL11B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL12B.1x36mers.unique.bam SAMstats-SPL12B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL13A.1x36mers.unique.bam SAMstats-SPL13A.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL13B.1x36mers.unique.bam SAMstats-SPL13B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL13D.1x36mers.unique.bam SAMstats-SPL13D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL14B.1x36mers.unique.bam SAMstats-SPL14B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL15A.1x36mers.unique.bam SAMstats-SPL15A.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL15B.1x36mers.unique.bam SAMstats-SPL15B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL15D.1x36mers.unique.bam SAMstats-SPL15D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL16A.1x36mers.unique.bam SAMstats-SPL16A.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL16D.1x36mers.unique.bam SAMstats-SPL16D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL18A.1x36mers.unique.bam SAMstats-SPL18A.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL18D2.1x36mers.unique.bam SAMstats-SPL18D2.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL19B_rep1.1x36mers.unique.bam SAMstats-SPL19B_rep1.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL19B_rep2.1x36mers.unique.bam SAMstats-SPL19B_rep2.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL1D_rep1.1x36mers.unique.bam SAMstats-SPL1D_rep1.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL1D_rep2.1x36mers.unique.bam SAMstats-SPL1D_rep2.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL2A_rep1.1x36mers.unique.bam SAMstats-SPL2A_rep1.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL2A_rep2.1x36mers.unique.bam SAMstats-SPL2A_rep2.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL2B.1x36mers.unique.bam SAMstats-SPL2B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL2D.1x36mers.unique.bam SAMstats-SPL2D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL3A.1x36mers.unique.bam SAMstats-SPL3A.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL3B.1x36mers.unique.bam SAMstats-SPL3B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL3D.1x36mers.unique.bam SAMstats-SPL3D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL4A.1x36mers.unique.bam SAMstats-SPL4A.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL4B.1x36mers.unique.bam SAMstats-SPL4B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL4D.1x36mers.unique.bam SAMstats-SPL4D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL5A.1x36mers.unique.bam SAMstats-SPL5A.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL5B.1x36mers.unique.bam SAMstats-SPL5B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL5D.1x36mers.unique.bam SAMstats-SPL5D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL6A_rep1.1x36mers.unique.bam SAMstats-SPL6A_rep1.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL6A_rep2.1x36mers.unique.bam SAMstats-SPL6A_rep2.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL6B.1x36mers.unique.bam SAMstats-SPL6B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL6D.1x36mers.unique.bam SAMstats-SPL6D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL7A.1x36mers.unique.bam SAMstats-SPL7A.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL7B.1x36mers.unique.bam SAMstats-SPL7B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL7D.1x36mers.unique.bam SAMstats-SPL7D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL8A_rep1.1x36mers.unique.bam SAMstats-SPL8A_rep1.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL8A_rep2.1x36mers.unique.bam SAMstats-SPL8A_rep2.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL8B.1x36mers.unique.bam SAMstats-SPL8B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL8D1.1x36mers.unique.bam SAMstats-SPL8D1.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL9A_rep1.1x36mers.unique.bam SAMstats-SPL9A_rep1.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL9A_rep2.1x36mers.unique.bam SAMstats-SPL9A_rep2.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL9B.1x36mers.unique.bam SAMstats-SPL9B.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SPL9D.1x36mers.unique.bam SAMstats-SPL9D.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py Ta-input.1x36mers.unique.bam SAMstats-Ta-input.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py Ta-input2.1x36mers.unique.bam SAMstats-Ta-input2.1x36mers.unique -bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1/Triticum_aestivum-IWGSC_CS_RefSeq_v2.1.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired -uniqueBAM