python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py FRT82_ATAC-Seq-GSM1426254.1x36mers.unique.5p.TSS_profile 100 2000 > ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py FRT82_ATAC-Seq-GSM1426254.1x36mers.unique.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py Optix-GFP_ATAC-Seq-GSM1426256.1x36mers.unique.5p.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py Optix-GFP_ATAC-Seq-GSM1426256.1x36mers.unique.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RAL-208_ATAC-Seq-GSM1426255.1x36mers.unique.5p.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RAL-208_ATAC-Seq-GSM1426255.1x36mers.unique.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Early_ATAC-Seq-GSM1426257.1x36mers.unique.5p.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Early_ATAC-Seq-GSM1426257.1x36mers.unique.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Late_ATAC-Seq-GSM1426258.1x36mers.unique.5p.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Late_ATAC-Seq-GSM1426258.1x36mers.unique.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep1_ATAC-Seq-GSM1426259.1x36mers.unique.5p.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep1_ATAC-Seq-GSM1426259.1x36mers.unique.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep2_ATAC-Seq-GSM1426260.1x36mers.unique.5p.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep2_ATAC-Seq-GSM1426260.1x36mers.unique.TSS_profile 100 2000 >> ATACTSSscore.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py FRT82_ATAC-Seq-GSM1426254.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 1 > ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py FRT82_ATAC-Seq-GSM1426254.1x36mers.unique.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py Optix-GFP_ATAC-Seq-GSM1426256.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py Optix-GFP_ATAC-Seq-GSM1426256.1x36mers.unique.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RAL-208_ATAC-Seq-GSM1426255.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RAL-208_ATAC-Seq-GSM1426255.1x36mers.unique.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Early_ATAC-Seq-GSM1426257.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Early_ATAC-Seq-GSM1426257.1x36mers.unique.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Late_ATAC-Seq-GSM1426258.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Late_ATAC-Seq-GSM1426258.1x36mers.unique.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep1_ATAC-Seq-GSM1426259.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep1_ATAC-Seq-GSM1426259.1x36mers.unique.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep2_ATAC-Seq-GSM1426260.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep2_ATAC-Seq-GSM1426260.1x36mers.unique.TSS_profile 100 2000 -subtractMin 1 >> ATACTSSscore-subMin.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py FRT82_ATAC-Seq-GSM1426254.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 20 > ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py FRT82_ATAC-Seq-GSM1426254.1x36mers.unique.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py Optix-GFP_ATAC-Seq-GSM1426256.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py Optix-GFP_ATAC-Seq-GSM1426256.1x36mers.unique.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RAL-208_ATAC-Seq-GSM1426255.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RAL-208_ATAC-Seq-GSM1426255.1x36mers.unique.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Early_ATAC-Seq-GSM1426257.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Early_ATAC-Seq-GSM1426257.1x36mers.unique.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Late_ATAC-Seq-GSM1426258.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py RasScrib-Late_ATAC-Seq-GSM1426258.1x36mers.unique.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep1_ATAC-Seq-GSM1426259.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep1_ATAC-Seq-GSM1426259.1x36mers.unique.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep2_ATAC-Seq-GSM1426260.1x36mers.unique.5p.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt
python /oak/stanford/groups/akundaje/marinovg/code/ATAC/ATACTSSscore.py UPD-Overexpression-Rep2_ATAC-Seq-GSM1426260.1x36mers.unique.TSS_profile 100 2000 -subtractMin 20 >> ATACTSSscore-subMin-20.txt