Rscript ~/code/spp/spp_package/run_spp.R -c=ABI19_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ABI19_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ABI19_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ABI19_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ABI34_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ABI34_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ABI34_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ABI34_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ABI8_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ABI8_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ABI8_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ABI8_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF10_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF10_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF13_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF13_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF14_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF14_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF16_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF16_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF18_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF18_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF25_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF25_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF27_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF27_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF29_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF29_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF34_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF34_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF35_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF35_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF36_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF36_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF39_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF39_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF4_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF4_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARF7_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARF7_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARR5_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARR5_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ARR5_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ARR5_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BAF1_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BAF1_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BAF1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BAF1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BAFL12_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BAFL12_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BAFL3_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BAFL3_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH106_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH106_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH106_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH106_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH113_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH113_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH113_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH113_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH125_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH125_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH135_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH135_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH135_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH135_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH149_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH149_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH149_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH149_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH14_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH14_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH150_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH150_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH150_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH150_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH168_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH168_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH17_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH17_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH17_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH17_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH52_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH52_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH52_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH52_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH57_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH57_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH57_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH57_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH61_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH61_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH61_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH61_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH67_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH67_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH67_BA1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH67_BA1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH85_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH85_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH85_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH85_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH91_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH91_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH91_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH91_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH99_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH99_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BHLH99_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BHLH99_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP105_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP105_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP105_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP105_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP106_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP106_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP106_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP106_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP111_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP111_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP111_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP111_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP112_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP112_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP112_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP112_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP115_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP115_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP115_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP115_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP124_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP124_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP124_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP124_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP128_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP128_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP128_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP128_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP12_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP12_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP12_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP12_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP13_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP13_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP13_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP13_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP160_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP160_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP160_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP160_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP1_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP1_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP21_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP21_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP21_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP21_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP23_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP23_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP23_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP23_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP25_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP25_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP25_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP25_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP27_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP27_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP27_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP27_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP2_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP34_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP34_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP34_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP34_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP39_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP39_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP39_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP39_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP40_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP40_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP40_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP40_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP41_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP41_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP41_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP41_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP48_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP48_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP48_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP48_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP52_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP52_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP52_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP52_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP54_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP54_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP54_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP54_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP57_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP57_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP58_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP58_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP58_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP58_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP61_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP61_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP61_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP61_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP62_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP62_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP62_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP62_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP68_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP68_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP68_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP68_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP70_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP70_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP70_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP70_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP72_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP72_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP79_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP79_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP79_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP79_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP84_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP84_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP84_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP84_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP86_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP86_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP86_rep1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP86_rep1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP86_rep2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP86_rep2_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP87_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP87_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP87_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP87_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP90_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP90_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP90_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP90_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP91_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP91_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP91_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP91_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP92_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP92_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP92_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP92_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP94_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP94_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP94_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP94_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP96_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP96_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP99_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP99_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZIP99_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZIP99_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZR1_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZR1_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=BZR1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=BZR1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=CA2P13_CA3P1_CA5P7_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=CA2P13_CA3P1_CA5P7_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=CA2P13_CA3P1_CA5P7_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=CA2P13_CA3P1_CA5P7_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=CA2P13_CA3P4_CA5P7_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=CA2P13_CA3P4_CA5P7_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=CA2P13_CA3P4_CA5P7_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=CA2P13_CA3P4_CA5P7_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=CCHH2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=CCHH2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=CCHH2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=CCHH2_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH113_BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH113_BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH113_BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH113_BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH135_BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH135_BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH135_BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH135_BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH14_BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH14_BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH14_BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH14_BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH150_BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH150_BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH150_BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH150_BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH52_BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH52_BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH52_BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH52_BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH61_BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH61_BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH61_BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH61_BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH67_BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH67_BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH67_BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH67_BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH85_BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH85_BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH85_BHLH125_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH85_BHLH125_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH85_BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH85_BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH92_BHLH125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH92_BHLH125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DD_BHLH92_BHLH168_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DD_BHLH92_BHLH168_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DOF1_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DOF1_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DOF1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DOF1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DOF24_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DOF24_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=DOF24_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=DOF24_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB126_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB126_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB126_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB126_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB138_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB138_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB145_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB145_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB145_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB145_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB149_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB149_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB149_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB149_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB183_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB183_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB183_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB183_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB201_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB201_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB201_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB201_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB24_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB24_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB29_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB29_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB2_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB36_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB36_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB36_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB36_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB46_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB46_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB46_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB46_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB49_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB49_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB49_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB49_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB4_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB4_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB4_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB4_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB53_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB53_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB53_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB53_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB87_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB87_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=EREB87_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=EREB87_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GATA20_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GATA20_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GATA20_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GATA20_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GBP10_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GBP10_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GBP10_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GBP10_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GBP11_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GBP11_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GBP11_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GBP11_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GBP4_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GBP4_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GBP4_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GBP4_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK17_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK17_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK17_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK17_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK20_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK20_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK20_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK20_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK21_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK21_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK21_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK21_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK44_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK44_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK44_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK44_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK47_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK47_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK47_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK47_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK48_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK48_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK48_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK48_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK53_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK53_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK53_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK53_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK56_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK56_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GLK56_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GLK56_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF2_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF3_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF3_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF3_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF3_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF6_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF6_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF6_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF6_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF7_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF7_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF7_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF7_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF9_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF9_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=GRF9_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=GRF9_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HALO-GST_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HALO-GST_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB102_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB102_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB102_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB102_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB117_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB117_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB117_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB117_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB122_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB122_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB122_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB122_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB15_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB15_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB15_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB15_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB22_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB22_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB22_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB22_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB54_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB54_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB54_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB54_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB67_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB67_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB67_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB67_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB68_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB68_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HB68_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HB68_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HSF10_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HSF10_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HSF10_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HSF10_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HSF24_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HSF24_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HSF24_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HSF24_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HSF25_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HSF25_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HSF25_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HSF25_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HSF7_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HSF7_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=HSF7_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=HSF7_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=LBD16_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=LBD16_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=LBD19_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=LBD19_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=LBD37_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=LBD37_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=LBD37_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=LBD37_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=LBD5_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=LBD5_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS12_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS12_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS12_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS12_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS43_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS43_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS43_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS43_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS68_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS68_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS68_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS68_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS69_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS69_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS69_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS69_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS72_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS72_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS72_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS72_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS73_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS73_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MADS73_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MADS73_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB131_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB131_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB131_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB131_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB138_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB138_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB138_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB138_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB40_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB40_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB40_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB40_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB50_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB50_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB50_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB50_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB73_DED1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB73_DED1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB83_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB83_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB83_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB83_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYB94_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYB94_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR101_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR101_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR101_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR101_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR111_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR111_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR111_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR111_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR17_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR17_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR17_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR17_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR52_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR52_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR52_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR52_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR58_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR58_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=MYBR58_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=MYBR58_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC115_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC115_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC115_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC115_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC116_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC116_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC116_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC116_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC12_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC12_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC12_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC12_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC20_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC20_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC20_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC20_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC25_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC25_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC25_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC25_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC27_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC27_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC27_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC27_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC28_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC28_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC28_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC28_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC33_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC33_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC33_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC33_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC3_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC3_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC3_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC3_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC42_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC42_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC42_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC42_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC49_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC49_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC49_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC49_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC71_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC71_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC71_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC71_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC74_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC74_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC74_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC74_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC86_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC86_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC86_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC86_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NAC91_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NAC91_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NFYA1_LEC1_CA5P16_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NFYA1_LEC1_CA5P16_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NFYA1_LEC1_CA5P16_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NFYA1_LEC1_CA5P16_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NKD1_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NKD1_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NKD1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NKD1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NKD2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NKD2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NKD2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NKD2_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NLP14_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NLP14_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=NLP14_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=NLP14_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP15_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP15_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP15_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP15_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP1_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP1_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP2_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP30_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP30_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP30_rep1_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP30_rep1_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP30_rep2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP30_rep2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP32_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP32_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP32_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP32_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP6_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP6_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=SBP8_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=SBP8_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP11_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP11_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP11_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP11_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP15_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP15_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP15_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP15_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP2_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP30_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP30_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP30_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP30_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP3_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP3_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP4_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP4_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP4_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP4_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP5_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP5_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP5_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP5_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP8_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP8_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=TCP8_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=TCP8_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=THX16_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=THX16_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=THX16_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=THX16_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=THX20_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=THX20_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=THX20_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=THX20_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=THX26_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=THX26_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=THX26_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=THX26_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY11_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY11_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY11_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY11_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY125_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY125_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY125_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY125_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY53_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY53_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY53_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY53_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY57_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY57_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY57_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY57_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY64_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY64_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY64_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY64_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY82_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY82_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=WRKY82_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=WRKY82_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=YAB2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=YAB2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=YAB2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=YAB2_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD15_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD15_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD15_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD15_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD1_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD1_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD1_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD1_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD21_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD21_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD21_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD21_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD4_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD4_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD4_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD4_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD5_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD5_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZHD5_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZHD5_Mo17.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZIM2_B73.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZIM2_B73.1x36mers.QC
Rscript ~/code/spp/spp_package/run_spp.R -c=ZIM2_Mo17.1x36mers.unique.bam -p=20 -savp -rf -s=-0:2:400 -out=ZIM2_Mo17.1x36mers.QC
