Workflow: test-workflow

Fetched 2019-07-23 15:31:50 GMT
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Inputs

ID Type Title Doc
ref File [FASTA]

reference (e.g., hs37d5) in fasta format

fq2 File [FASTQ]

FastQ file from next-generation sequencers

fq1 File [FASTQ]

FastQ file from next-generation sequencers

Steps

ID Runs Label Doc
qc2
../Tools/fastqc.cwl (CommandLineTool)
fastqc
qc2P
../Tools/fastqc.cwl (CommandLineTool)
fastqc
qc1P
../Tools/fastqc.cwl (CommandLineTool)
fastqc
map
../Tools/bwa-mem-PE.cwl (CommandLineTool)
bwa-mem-PE-0.7.4--ha92aebf_0
qc1
../Tools/fastqc.cwl (CommandLineTool)
fastqc
trimPE
../Tools/trimmomaticPE.cwl (CommandLineTool)
trimmomatic-0.38

Outputs

ID Type Label Doc
oqc1P File
oqc1 File
oqc2 File
sam File
oqc2P File
Permalink: https://w3id.org/cwl/view/git/30fe60ed62d64e45ac2de30117096e8697d08475/Workflows/test-workflow.cwl