python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 13004-1_S1_L001_R1_001.fastq.gz,13004-1_S1_L002_R1_001.fastq.gz,13004-1_S1_L003_R1_001.fastq.gz,13004-1_S1_L004_R1_001.fastq.gz 13004-1_S1_L001_R2_001.fastq.gz,13004-1_S1_L002_R2_001.fastq.gz,13004-1_S1_L003_R2_001.fastq.gz,13004-1_S1_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 13004-1_S1.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 13004-2_S2_L001_R1_001.fastq.gz,13004-2_S2_L002_R1_001.fastq.gz,13004-2_S2_L003_R1_001.fastq.gz,13004-2_S2_L004_R1_001.fastq.gz 13004-2_S2_L001_R2_001.fastq.gz,13004-2_S2_L002_R2_001.fastq.gz,13004-2_S2_L003_R2_001.fastq.gz,13004-2_S2_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 13004-2_S2.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 13006-1_S3_L001_R1_001.fastq.gz,13006-1_S3_L002_R1_001.fastq.gz,13006-1_S3_L003_R1_001.fastq.gz,13006-1_S3_L004_R1_001.fastq.gz 13006-1_S3_L001_R2_001.fastq.gz,13006-1_S3_L002_R2_001.fastq.gz,13006-1_S3_L003_R2_001.fastq.gz,13006-1_S3_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 13006-1_S3.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 13006-2_S4_L001_R1_001.fastq.gz,13006-2_S4_L002_R1_001.fastq.gz,13006-2_S4_L003_R1_001.fastq.gz,13006-2_S4_L004_R1_001.fastq.gz 13006-2_S4_L001_R2_001.fastq.gz,13006-2_S4_L002_R2_001.fastq.gz,13006-2_S4_L003_R2_001.fastq.gz,13006-2_S4_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 13006-2_S4.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 13189-1_JT_CTCFvalidationRNAseq_170303_S9_L001_R1_001.fastq.gz,13189-1_JT_CTCFvalidationRNAseq_170303_S9_L002_R1_001.fastq.gz,13189-1_JT_CTCFvalidationRNAseq_170303_S9_L003_R1_001.fastq.gz,13189-1_JT_CTCFvalidationRNAseq_170303_S9_L004_R1_001.fastq.gz 13189-1_JT_CTCFvalidationRNAseq_170303_S9_L001_R2_001.fastq.gz,13189-1_JT_CTCFvalidationRNAseq_170303_S9_L002_R2_001.fastq.gz,13189-1_JT_CTCFvalidationRNAseq_170303_S9_L003_R2_001.fastq.gz,13189-1_JT_CTCFvalidationRNAseq_170303_S9_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 13189-1_JT_CTCFvalidationRNAseq_170303_S9.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 13189-2_JT_CTCFvalidationRNAseq_170303_S10_L001_R1_001.fastq.gz,13189-2_JT_CTCFvalidationRNAseq_170303_S10_L002_R1_001.fastq.gz,13189-2_JT_CTCFvalidationRNAseq_170303_S10_L003_R1_001.fastq.gz,13189-2_JT_CTCFvalidationRNAseq_170303_S10_L004_R1_001.fastq.gz 13189-2_JT_CTCFvalidationRNAseq_170303_S10_L001_R2_001.fastq.gz,13189-2_JT_CTCFvalidationRNAseq_170303_S10_L002_R2_001.fastq.gz,13189-2_JT_CTCFvalidationRNAseq_170303_S10_L003_R2_001.fastq.gz,13189-2_JT_CTCFvalidationRNAseq_170303_S10_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 13189-2_JT_CTCFvalidationRNAseq_170303_S10.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 13190-1_JT_CTCFvalidationRNAseq_170303_S11_L001_R1_001.fastq.gz,13190-1_JT_CTCFvalidationRNAseq_170303_S11_L002_R1_001.fastq.gz,13190-1_JT_CTCFvalidationRNAseq_170303_S11_L003_R1_001.fastq.gz,13190-1_JT_CTCFvalidationRNAseq_170303_S11_L004_R1_001.fastq.gz 13190-1_JT_CTCFvalidationRNAseq_170303_S11_L001_R2_001.fastq.gz,13190-1_JT_CTCFvalidationRNAseq_170303_S11_L002_R2_001.fastq.gz,13190-1_JT_CTCFvalidationRNAseq_170303_S11_L003_R2_001.fastq.gz,13190-1_JT_CTCFvalidationRNAseq_170303_S11_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 13190-1_JT_CTCFvalidationRNAseq_170303_S11.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 13190-2_JT_CTCFvalidationRNAseq_170303_S12_L001_R1_001.fastq.gz,13190-2_JT_CTCFvalidationRNAseq_170303_S12_L002_R1_001.fastq.gz,13190-2_JT_CTCFvalidationRNAseq_170303_S12_L003_R1_001.fastq.gz,13190-2_JT_CTCFvalidationRNAseq_170303_S12_L004_R1_001.fastq.gz 13190-2_JT_CTCFvalidationRNAseq_170303_S12_L001_R2_001.fastq.gz,13190-2_JT_CTCFvalidationRNAseq_170303_S12_L002_R2_001.fastq.gz,13190-2_JT_CTCFvalidationRNAseq_170303_S12_L003_R2_001.fastq.gz,13190-2_JT_CTCFvalidationRNAseq_170303_S12_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 13190-2_JT_CTCFvalidationRNAseq_170303_S12.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 15171-1_JT_CTCFvalidationRNAseq_170303_S5_L001_R1_001.fastq.gz,15171-1_JT_CTCFvalidationRNAseq_170303_S5_L002_R1_001.fastq.gz,15171-1_JT_CTCFvalidationRNAseq_170303_S5_L003_R1_001.fastq.gz,15171-1_JT_CTCFvalidationRNAseq_170303_S5_L004_R1_001.fastq.gz 15171-1_JT_CTCFvalidationRNAseq_170303_S5_L001_R2_001.fastq.gz,15171-1_JT_CTCFvalidationRNAseq_170303_S5_L002_R2_001.fastq.gz,15171-1_JT_CTCFvalidationRNAseq_170303_S5_L003_R2_001.fastq.gz,15171-1_JT_CTCFvalidationRNAseq_170303_S5_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 15171-1_JT_CTCFvalidationRNAseq_170303_S5.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 15171-2_JT_CTCFvalidationRNAseq_170303_S6_L001_R1_001.fastq.gz,15171-2_JT_CTCFvalidationRNAseq_170303_S6_L002_R1_001.fastq.gz,15171-2_JT_CTCFvalidationRNAseq_170303_S6_L003_R1_001.fastq.gz,15171-2_JT_CTCFvalidationRNAseq_170303_S6_L004_R1_001.fastq.gz 15171-2_JT_CTCFvalidationRNAseq_170303_S6_L001_R2_001.fastq.gz,15171-2_JT_CTCFvalidationRNAseq_170303_S6_L002_R2_001.fastq.gz,15171-2_JT_CTCFvalidationRNAseq_170303_S6_L003_R2_001.fastq.gz,15171-2_JT_CTCFvalidationRNAseq_170303_S6_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 15171-2_JT_CTCFvalidationRNAseq_170303_S6.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 15173-1_JT_CTCFvalidationRNAseq_170303_S7_L001_R1_001.fastq.gz,15173-1_JT_CTCFvalidationRNAseq_170303_S7_L002_R1_001.fastq.gz,15173-1_JT_CTCFvalidationRNAseq_170303_S7_L003_R1_001.fastq.gz,15173-1_JT_CTCFvalidationRNAseq_170303_S7_L004_R1_001.fastq.gz 15173-1_JT_CTCFvalidationRNAseq_170303_S7_L001_R2_001.fastq.gz,15173-1_JT_CTCFvalidationRNAseq_170303_S7_L002_R2_001.fastq.gz,15173-1_JT_CTCFvalidationRNAseq_170303_S7_L003_R2_001.fastq.gz,15173-1_JT_CTCFvalidationRNAseq_170303_S7_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 15173-1_JT_CTCFvalidationRNAseq_170303_S7.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py 15173-2_JT_CTCFvalidationRNAseq_170303_S8_L001_R1_001.fastq.gz,15173-2_JT_CTCFvalidationRNAseq_170303_S8_L002_R1_001.fastq.gz,15173-2_JT_CTCFvalidationRNAseq_170303_S8_L003_R1_001.fastq.gz,15173-2_JT_CTCFvalidationRNAseq_170303_S8_L004_R1_001.fastq.gz 15173-2_JT_CTCFvalidationRNAseq_170303_S8_L001_R2_001.fastq.gz,15173-2_JT_CTCFvalidationRNAseq_170303_S8_L002_R2_001.fastq.gz,15173-2_JT_CTCFvalidationRNAseq_170303_S8_L003_R2_001.fastq.gz,15173-2_JT_CTCFvalidationRNAseq_170303_S8_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - 15173-2_JT_CTCFvalidationRNAseq_170303_S8.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py N4293-1_JT_CTCFvalidationRNAseq_170303_S1_L001_R1_001.fastq.gz,N4293-1_JT_CTCFvalidationRNAseq_170303_S1_L002_R1_001.fastq.gz,N4293-1_JT_CTCFvalidationRNAseq_170303_S1_L003_R1_001.fastq.gz,N4293-1_JT_CTCFvalidationRNAseq_170303_S1_L004_R1_001.fastq.gz N4293-1_JT_CTCFvalidationRNAseq_170303_S1_L001_R2_001.fastq.gz,N4293-1_JT_CTCFvalidationRNAseq_170303_S1_L002_R2_001.fastq.gz,N4293-1_JT_CTCFvalidationRNAseq_170303_S1_L003_R2_001.fastq.gz,N4293-1_JT_CTCFvalidationRNAseq_170303_S1_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - N4293-1_JT_CTCFvalidationRNAseq_170303_S1.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py N4293-1_S5_L001_R1_001.fastq.gz,N4293-1_S5_L002_R1_001.fastq.gz,N4293-1_S5_L003_R1_001.fastq.gz,N4293-1_S5_L004_R1_001.fastq.gz N4293-1_S5_L001_R2_001.fastq.gz,N4293-1_S5_L002_R2_001.fastq.gz,N4293-1_S5_L003_R2_001.fastq.gz,N4293-1_S5_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - N4293-1_S5.50mers
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py N4293-2_JT_CTCFvalidationRNAseq_170303_S2_L001_R1_001.fastq.gz,N4293-2_JT_CTCFvalidationRNAseq_170303_S2_L002_R1_001.fastq.gz,N4293-2_JT_CTCFvalidationRNAseq_170303_S2_L003_R1_001.fastq.gz,N4293-2_JT_CTCFvalidationRNAseq_170303_S2_L004_R1_001.fastq.gz N4293-2_JT_CTCFvalidationRNAseq_170303_S2_L001_R2_001.fastq.gz,N4293-2_JT_CTCFvalidationRNAseq_170303_S2_L002_R2_001.fastq.gz,N4293-2_JT_CTCFvalidationRNAseq_170303_S2_L003_R2_001.fastq.gz,N4293-2_JT_CTCFvalidationRNAseq_170303_S2_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - N4293-2_JT_CTCFvalidationRNAseq_170303_S2.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py N4293-2_S6_L001_R1_001.fastq.gz,N4293-2_S6_L002_R1_001.fastq.gz,N4293-2_S6_L003_R1_001.fastq.gz,N4293-2_S6_L004_R1_001.fastq.gz N4293-2_S6_L001_R2_001.fastq.gz,N4293-2_S6_L002_R2_001.fastq.gz,N4293-2_S6_L003_R2_001.fastq.gz,N4293-2_S6_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - N4293-2_S6.50mers
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py N4371-1_JT_CTCFvalidationRNAseq_170303_S3_L001_R1_001.fastq.gz,N4371-1_JT_CTCFvalidationRNAseq_170303_S3_L002_R1_001.fastq.gz,N4371-1_JT_CTCFvalidationRNAseq_170303_S3_L003_R1_001.fastq.gz,N4371-1_JT_CTCFvalidationRNAseq_170303_S3_L004_R1_001.fastq.gz N4371-1_JT_CTCFvalidationRNAseq_170303_S3_L001_R2_001.fastq.gz,N4371-1_JT_CTCFvalidationRNAseq_170303_S3_L002_R2_001.fastq.gz,N4371-1_JT_CTCFvalidationRNAseq_170303_S3_L003_R2_001.fastq.gz,N4371-1_JT_CTCFvalidationRNAseq_170303_S3_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - N4371-1_JT_CTCFvalidationRNAseq_170303_S3.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py N4371-1_S7_L001_R1_001.fastq.gz,N4371-1_S7_L002_R1_001.fastq.gz,N4371-1_S7_L003_R1_001.fastq.gz,N4371-1_S7_L004_R1_001.fastq.gz N4371-1_S7_L001_R2_001.fastq.gz,N4371-1_S7_L002_R2_001.fastq.gz,N4371-1_S7_L003_R2_001.fastq.gz,N4371-1_S7_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - N4371-1_S7.50mers
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py N4371-2_JT_CTCFvalidationRNAseq_170303_S4_L001_R1_001.fastq.gz,N4371-2_JT_CTCFvalidationRNAseq_170303_S4_L002_R1_001.fastq.gz,N4371-2_JT_CTCFvalidationRNAseq_170303_S4_L003_R1_001.fastq.gz,N4371-2_JT_CTCFvalidationRNAseq_170303_S4_L004_R1_001.fastq.gz N4371-2_JT_CTCFvalidationRNAseq_170303_S4_L001_R2_001.fastq.gz,N4371-2_JT_CTCFvalidationRNAseq_170303_S4_L002_R2_001.fastq.gz,N4371-2_JT_CTCFvalidationRNAseq_170303_S4_L003_R2_001.fastq.gz,N4371-2_JT_CTCFvalidationRNAseq_170303_S4_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - N4371-2_JT_CTCFvalidationRNAseq_170303_S4.50mers 
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py N4371-2_S8_L001_R1_001.fastq.gz,N4371-2_S8_L002_R1_001.fastq.gz,N4371-2_S8_L003_R1_001.fastq.gz,N4371-2_S8_L004_R1_001.fastq.gz N4371-2_S8_L001_R2_001.fastq.gz,N4371-2_S8_L002_R2_001.fastq.gz,N4371-2_S8_L003_R2_001.fastq.gz,N4371-2_S8_L004_R2_001.fastq.gz -trim 50 50 -minReadLen 50 | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - N4371-2_S8.50mers