Workflow: Bisulfite QC tools

Fetched 2023-01-04 07:46:04 GMT
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Workflow as SVG
  • Selected
  • Default Values
  • Nested Workflows
  • Tools
  • Inputs/Outputs

Inputs

ID Type Title Doc
bam File
vcf File
reference String
output_dir String (Optional)
QCannotation File

Steps

ID Runs Label Doc
coverage_stats
../tools/bisulfite_qc_coverage_stats.cwl (CommandLineTool)
Biscuit QC: Bisulfite conversion rate.
mapping_summary
../tools/bisulfite_qc_mapping_summary.cwl (CommandLineTool)
Biscuit QC: Bisulfite conversion rate.
bisulfite_conversion
../tools/bisulfite_qc_conversion.cwl (CommandLineTool)
Biscuit QC: Bisulfite conversion rate.
gather_to_sub_directory
../tools/gather_to_sub_directory.cwl (CommandLineTool)
cpg_retention_distribution
../tools/bisulfite_qc_cpg_retention_distribution.cwl (CommandLineTool)
Biscuit QC: CpG Retention Distribution

Outputs

ID Type Label Doc
QC_directory Directory
Permalink: https://w3id.org/cwl/view/git/0b0ad1a54f0f6849dc645449b079470448a23095/definitions/subworkflows/bisulfite_qc.cwl