Workflow: A CGP workflow to validate an interleaved fastq

Fetched 2021-11-29 17:38:13 GMT

A workflow to validate the file format and base quality score range. See the [workflow-seq-import](https://github.com/cancerit/workflow-seq-import) website for more information.

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Workflow as SVG
  • Selected
  • Default Values
  • Nested Workflows
  • Tools
  • Inputs/Outputs

Inputs

ID Type Title Doc
fastq_in File

A gzipped interleaved fastq file.

Steps

ID Runs Label Doc
validate
https://raw.githubusercontent.com/cancerit/dockstore-cgp-seqval/1.0.0/Dockstore.cwl (CommandLineTool)
CGP sequence validator

![build_status](https://quay.io/repository/wtsicgp/dockstore-cgp-seqval/status) A Docker container for validating interleaved fastq files.

See the dockstore-cgp-seqval [README](https://github.com/cancerit/dockstore-cgp-seqval/blob/develop/README.md) for full details of how to use.

Outputs

ID Type Label Doc
report File
Permalink: https://w3id.org/cwl/view/git/365e61477f735953080bb3d5d4b2ee13202588b0/cwls/validate_interleaved_fq.cwl