python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz0 Undetermined_S0_L001_R2_001.fastq.gz0 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-0
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz1 Undetermined_S0_L001_R2_001.fastq.gz1 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-1
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz10 Undetermined_S0_L001_R2_001.fastq.gz10 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-10
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz11 Undetermined_S0_L001_R2_001.fastq.gz11 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-11
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz12 Undetermined_S0_L001_R2_001.fastq.gz12 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-12
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz13 Undetermined_S0_L001_R2_001.fastq.gz13 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-13
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz14 Undetermined_S0_L001_R2_001.fastq.gz14 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-14
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz15 Undetermined_S0_L001_R2_001.fastq.gz15 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-15
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz16 Undetermined_S0_L001_R2_001.fastq.gz16 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-16
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz17 Undetermined_S0_L001_R2_001.fastq.gz17 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-17
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz18 Undetermined_S0_L001_R2_001.fastq.gz18 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-18
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz19 Undetermined_S0_L001_R2_001.fastq.gz19 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-19
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz2 Undetermined_S0_L001_R2_001.fastq.gz2 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-2
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz20 Undetermined_S0_L001_R2_001.fastq.gz20 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-20
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz21 Undetermined_S0_L001_R2_001.fastq.gz21 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-21
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz22 Undetermined_S0_L001_R2_001.fastq.gz22 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-22
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz23 Undetermined_S0_L001_R2_001.fastq.gz23 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-23
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz24 Undetermined_S0_L001_R2_001.fastq.gz24 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-24
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz25 Undetermined_S0_L001_R2_001.fastq.gz25 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-25
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz26 Undetermined_S0_L001_R2_001.fastq.gz26 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-26
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz27 Undetermined_S0_L001_R2_001.fastq.gz27 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-27
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz28 Undetermined_S0_L001_R2_001.fastq.gz28 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-28
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz29 Undetermined_S0_L001_R2_001.fastq.gz29 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-29
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz3 Undetermined_S0_L001_R2_001.fastq.gz3 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-3
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz30 Undetermined_S0_L001_R2_001.fastq.gz30 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-30
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz31 Undetermined_S0_L001_R2_001.fastq.gz31 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-31
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz32 Undetermined_S0_L001_R2_001.fastq.gz32 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-32
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz33 Undetermined_S0_L001_R2_001.fastq.gz33 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-33
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz34 Undetermined_S0_L001_R2_001.fastq.gz34 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-34
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz35 Undetermined_S0_L001_R2_001.fastq.gz35 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-35
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz36 Undetermined_S0_L001_R2_001.fastq.gz36 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-36
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz37 Undetermined_S0_L001_R2_001.fastq.gz37 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-37
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz38 Undetermined_S0_L001_R2_001.fastq.gz38 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-38
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz39 Undetermined_S0_L001_R2_001.fastq.gz39 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-39
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz4 Undetermined_S0_L001_R2_001.fastq.gz4 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-4
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz40 Undetermined_S0_L001_R2_001.fastq.gz40 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-40
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz41 Undetermined_S0_L001_R2_001.fastq.gz41 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-41
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz42 Undetermined_S0_L001_R2_001.fastq.gz42 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-42
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz43 Undetermined_S0_L001_R2_001.fastq.gz43 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-43
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz44 Undetermined_S0_L001_R2_001.fastq.gz44 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-44
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz45 Undetermined_S0_L001_R2_001.fastq.gz45 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-45
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz46 Undetermined_S0_L001_R2_001.fastq.gz46 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-46
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz47 Undetermined_S0_L001_R2_001.fastq.gz47 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-47
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz48 Undetermined_S0_L001_R2_001.fastq.gz48 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-48
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz49 Undetermined_S0_L001_R2_001.fastq.gz49 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-49
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz5 Undetermined_S0_L001_R2_001.fastq.gz5 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-5
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz50 Undetermined_S0_L001_R2_001.fastq.gz50 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-50
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz6 Undetermined_S0_L001_R2_001.fastq.gz6 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-6
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz7 Undetermined_S0_L001_R2_001.fastq.gz7 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-7
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz8 Undetermined_S0_L001_R2_001.fastq.gz8 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-8
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L001_R1_001.fastq.gz9 Undetermined_S0_L001_R2_001.fastq.gz9 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L001-9
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz0 Undetermined_S0_L002_R2_001.fastq.gz0 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-0
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz1 Undetermined_S0_L002_R2_001.fastq.gz1 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-1
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz10 Undetermined_S0_L002_R2_001.fastq.gz10 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-10
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz11 Undetermined_S0_L002_R2_001.fastq.gz11 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-11
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz12 Undetermined_S0_L002_R2_001.fastq.gz12 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-12
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz13 Undetermined_S0_L002_R2_001.fastq.gz13 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-13
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz14 Undetermined_S0_L002_R2_001.fastq.gz14 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-14
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz15 Undetermined_S0_L002_R2_001.fastq.gz15 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-15
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz16 Undetermined_S0_L002_R2_001.fastq.gz16 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-16
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz17 Undetermined_S0_L002_R2_001.fastq.gz17 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-17
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz18 Undetermined_S0_L002_R2_001.fastq.gz18 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-18
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz19 Undetermined_S0_L002_R2_001.fastq.gz19 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-19
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz2 Undetermined_S0_L002_R2_001.fastq.gz2 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-2
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz20 Undetermined_S0_L002_R2_001.fastq.gz20 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-20
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz21 Undetermined_S0_L002_R2_001.fastq.gz21 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-21
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz22 Undetermined_S0_L002_R2_001.fastq.gz22 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-22
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz23 Undetermined_S0_L002_R2_001.fastq.gz23 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-23
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz24 Undetermined_S0_L002_R2_001.fastq.gz24 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-24
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz25 Undetermined_S0_L002_R2_001.fastq.gz25 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-25
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz26 Undetermined_S0_L002_R2_001.fastq.gz26 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-26
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz27 Undetermined_S0_L002_R2_001.fastq.gz27 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-27
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz28 Undetermined_S0_L002_R2_001.fastq.gz28 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-28
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz29 Undetermined_S0_L002_R2_001.fastq.gz29 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-29
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz3 Undetermined_S0_L002_R2_001.fastq.gz3 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-3
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz30 Undetermined_S0_L002_R2_001.fastq.gz30 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-30
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz31 Undetermined_S0_L002_R2_001.fastq.gz31 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-31
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz32 Undetermined_S0_L002_R2_001.fastq.gz32 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-32
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz33 Undetermined_S0_L002_R2_001.fastq.gz33 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-33
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz34 Undetermined_S0_L002_R2_001.fastq.gz34 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-34
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz35 Undetermined_S0_L002_R2_001.fastq.gz35 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-35
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz36 Undetermined_S0_L002_R2_001.fastq.gz36 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-36
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz37 Undetermined_S0_L002_R2_001.fastq.gz37 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-37
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz38 Undetermined_S0_L002_R2_001.fastq.gz38 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-38
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz39 Undetermined_S0_L002_R2_001.fastq.gz39 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-39
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz4 Undetermined_S0_L002_R2_001.fastq.gz4 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-4
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz40 Undetermined_S0_L002_R2_001.fastq.gz40 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-40
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz41 Undetermined_S0_L002_R2_001.fastq.gz41 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-41
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz42 Undetermined_S0_L002_R2_001.fastq.gz42 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-42
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz43 Undetermined_S0_L002_R2_001.fastq.gz43 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-43
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz44 Undetermined_S0_L002_R2_001.fastq.gz44 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-44
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz45 Undetermined_S0_L002_R2_001.fastq.gz45 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-45
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz46 Undetermined_S0_L002_R2_001.fastq.gz46 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-46
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz47 Undetermined_S0_L002_R2_001.fastq.gz47 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-47
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz48 Undetermined_S0_L002_R2_001.fastq.gz48 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-48
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz49 Undetermined_S0_L002_R2_001.fastq.gz49 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-49
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz5 Undetermined_S0_L002_R2_001.fastq.gz5 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-5
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz6 Undetermined_S0_L002_R2_001.fastq.gz6 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-6
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz7 Undetermined_S0_L002_R2_001.fastq.gz7 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-7
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz8 Undetermined_S0_L002_R2_001.fastq.gz8 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-8
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L002_R1_001.fastq.gz9 Undetermined_S0_L002_R2_001.fastq.gz9 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L002-9
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz0 Undetermined_S0_L003_R2_001.fastq.gz0 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-0
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz1 Undetermined_S0_L003_R2_001.fastq.gz1 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-1
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz10 Undetermined_S0_L003_R2_001.fastq.gz10 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-10
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz11 Undetermined_S0_L003_R2_001.fastq.gz11 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-11
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz12 Undetermined_S0_L003_R2_001.fastq.gz12 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-12
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz13 Undetermined_S0_L003_R2_001.fastq.gz13 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-13
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz14 Undetermined_S0_L003_R2_001.fastq.gz14 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-14
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz15 Undetermined_S0_L003_R2_001.fastq.gz15 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-15
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz16 Undetermined_S0_L003_R2_001.fastq.gz16 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-16
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz17 Undetermined_S0_L003_R2_001.fastq.gz17 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-17
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz18 Undetermined_S0_L003_R2_001.fastq.gz18 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-18
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz19 Undetermined_S0_L003_R2_001.fastq.gz19 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-19
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz2 Undetermined_S0_L003_R2_001.fastq.gz2 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-2
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz20 Undetermined_S0_L003_R2_001.fastq.gz20 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-20
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz21 Undetermined_S0_L003_R2_001.fastq.gz21 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-21
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz22 Undetermined_S0_L003_R2_001.fastq.gz22 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-22
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz23 Undetermined_S0_L003_R2_001.fastq.gz23 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-23
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz24 Undetermined_S0_L003_R2_001.fastq.gz24 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-24
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz25 Undetermined_S0_L003_R2_001.fastq.gz25 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-25
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz26 Undetermined_S0_L003_R2_001.fastq.gz26 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-26
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz27 Undetermined_S0_L003_R2_001.fastq.gz27 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-27
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz28 Undetermined_S0_L003_R2_001.fastq.gz28 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-28
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz29 Undetermined_S0_L003_R2_001.fastq.gz29 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-29
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz3 Undetermined_S0_L003_R2_001.fastq.gz3 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-3
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz30 Undetermined_S0_L003_R2_001.fastq.gz30 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-30
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz31 Undetermined_S0_L003_R2_001.fastq.gz31 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-31
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz32 Undetermined_S0_L003_R2_001.fastq.gz32 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-32
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz33 Undetermined_S0_L003_R2_001.fastq.gz33 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-33
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz34 Undetermined_S0_L003_R2_001.fastq.gz34 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-34
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz35 Undetermined_S0_L003_R2_001.fastq.gz35 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-35
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz36 Undetermined_S0_L003_R2_001.fastq.gz36 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-36
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz37 Undetermined_S0_L003_R2_001.fastq.gz37 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-37
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz38 Undetermined_S0_L003_R2_001.fastq.gz38 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-38
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz39 Undetermined_S0_L003_R2_001.fastq.gz39 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-39
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz4 Undetermined_S0_L003_R2_001.fastq.gz4 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-4
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz40 Undetermined_S0_L003_R2_001.fastq.gz40 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-40
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz41 Undetermined_S0_L003_R2_001.fastq.gz41 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-41
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz42 Undetermined_S0_L003_R2_001.fastq.gz42 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-42
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz43 Undetermined_S0_L003_R2_001.fastq.gz43 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-43
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz44 Undetermined_S0_L003_R2_001.fastq.gz44 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-44
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz45 Undetermined_S0_L003_R2_001.fastq.gz45 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-45
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz46 Undetermined_S0_L003_R2_001.fastq.gz46 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-46
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz47 Undetermined_S0_L003_R2_001.fastq.gz47 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-47
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz48 Undetermined_S0_L003_R2_001.fastq.gz48 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-48
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz49 Undetermined_S0_L003_R2_001.fastq.gz49 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-49
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz5 Undetermined_S0_L003_R2_001.fastq.gz5 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-5
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz50 Undetermined_S0_L003_R2_001.fastq.gz50 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-50
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz6 Undetermined_S0_L003_R2_001.fastq.gz6 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-6
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz7 Undetermined_S0_L003_R2_001.fastq.gz7 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-7
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz8 Undetermined_S0_L003_R2_001.fastq.gz8 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-8
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L003_R1_001.fastq.gz9 Undetermined_S0_L003_R2_001.fastq.gz9 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L003-9
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz0 Undetermined_S0_L004_R2_001.fastq.gz0 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-0
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz1 Undetermined_S0_L004_R2_001.fastq.gz1 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-1
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz10 Undetermined_S0_L004_R2_001.fastq.gz10 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-10
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz11 Undetermined_S0_L004_R2_001.fastq.gz11 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-11
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz12 Undetermined_S0_L004_R2_001.fastq.gz12 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-12
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz13 Undetermined_S0_L004_R2_001.fastq.gz13 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-13
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz14 Undetermined_S0_L004_R2_001.fastq.gz14 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-14
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz15 Undetermined_S0_L004_R2_001.fastq.gz15 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-15
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz16 Undetermined_S0_L004_R2_001.fastq.gz16 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-16
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz17 Undetermined_S0_L004_R2_001.fastq.gz17 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-17
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz18 Undetermined_S0_L004_R2_001.fastq.gz18 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-18
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz19 Undetermined_S0_L004_R2_001.fastq.gz19 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-19
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz2 Undetermined_S0_L004_R2_001.fastq.gz2 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-2
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz20 Undetermined_S0_L004_R2_001.fastq.gz20 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-20
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz21 Undetermined_S0_L004_R2_001.fastq.gz21 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-21
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz22 Undetermined_S0_L004_R2_001.fastq.gz22 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-22
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz23 Undetermined_S0_L004_R2_001.fastq.gz23 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-23
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz24 Undetermined_S0_L004_R2_001.fastq.gz24 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-24
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz25 Undetermined_S0_L004_R2_001.fastq.gz25 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-25
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz26 Undetermined_S0_L004_R2_001.fastq.gz26 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-26
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz27 Undetermined_S0_L004_R2_001.fastq.gz27 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-27
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz28 Undetermined_S0_L004_R2_001.fastq.gz28 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-28
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz29 Undetermined_S0_L004_R2_001.fastq.gz29 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-29
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz3 Undetermined_S0_L004_R2_001.fastq.gz3 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-3
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz30 Undetermined_S0_L004_R2_001.fastq.gz30 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-30
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz31 Undetermined_S0_L004_R2_001.fastq.gz31 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-31
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz32 Undetermined_S0_L004_R2_001.fastq.gz32 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-32
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz33 Undetermined_S0_L004_R2_001.fastq.gz33 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-33
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz34 Undetermined_S0_L004_R2_001.fastq.gz34 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-34
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz35 Undetermined_S0_L004_R2_001.fastq.gz35 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-35
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz36 Undetermined_S0_L004_R2_001.fastq.gz36 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-36
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz37 Undetermined_S0_L004_R2_001.fastq.gz37 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-37
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz38 Undetermined_S0_L004_R2_001.fastq.gz38 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-38
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz39 Undetermined_S0_L004_R2_001.fastq.gz39 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-39
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz4 Undetermined_S0_L004_R2_001.fastq.gz4 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-4
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz40 Undetermined_S0_L004_R2_001.fastq.gz40 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-40
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz41 Undetermined_S0_L004_R2_001.fastq.gz41 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-41
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz42 Undetermined_S0_L004_R2_001.fastq.gz42 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-42
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz43 Undetermined_S0_L004_R2_001.fastq.gz43 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-43
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz44 Undetermined_S0_L004_R2_001.fastq.gz44 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-44
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz45 Undetermined_S0_L004_R2_001.fastq.gz45 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-45
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz46 Undetermined_S0_L004_R2_001.fastq.gz46 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-46
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz47 Undetermined_S0_L004_R2_001.fastq.gz47 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-47
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz48 Undetermined_S0_L004_R2_001.fastq.gz48 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-48
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz49 Undetermined_S0_L004_R2_001.fastq.gz49 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-49
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz5 Undetermined_S0_L004_R2_001.fastq.gz5 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-5
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz6 Undetermined_S0_L004_R2_001.fastq.gz6 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-6
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz7 Undetermined_S0_L004_R2_001.fastq.gz7 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-7
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz8 Undetermined_S0_L004_R2_001.fastq.gz8 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-8
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py Undetermined_S0_L004_R1_001.fastq.gz9 Undetermined_S0_L004_R2_001.fastq.gz9 | python /oak/stanford/groups/akundaje/marinovg/code/demultiplexFASTQDualIndex.py - SampleSheet-SHARE-seq.config 1 -50xOnly -suffix -L004-9