Workflow: checker-workflow-wrapping-tool.cwl

Fetched 2023-01-12 06:44:48 GMT
children parents
Workflow as SVG
  • Selected
  • Default Values
  • Nested Workflows
  • Tools
  • Inputs/Outputs

Inputs

ID Type Title Doc
files 74e4371da0e7b7a159e0a24edfc09265[]
analysis String[]
vrn_file String[]
resources String[]
description String[]
rgnames__lb String[]
rgnames__pl String[]
rgnames__pu String[]
rgnames__rg String[]
genome_build String[]
rgnames__lane String[]
reference__rtg File[]
metadata__batch String[]
rgnames__sample String[]
reference__twobit File[]
expected_validation File
metadata__phenotype String[]
reference__versions File[]
config__algorithm__qc f83ba08b534ddfd0b152ccd1b7d95f49[]
reference__fasta__base File[]
reference__bwa__indexes File[]
reference__genome_context 908de523d0f727d87bd88421a5f5fa15[]
config__algorithm__aligner String[]
config__algorithm__effects String[]
config__algorithm__vcfanno 27ff2fd9a064854eb625a6ab91112fc2[]
config__algorithm__adapters 57806d4fbc1b040249e0be48ad336c4e[]
config__algorithm__ensemble String[]
config__algorithm__svcaller 23d696db1682620a88d1973c752c4218[]
config__algorithm__tools_on 53045535e157847810e12e2d8d12d265[]
config__algorithm__validate File[]
config__algorithm__bam_clean Boolean[]
config__algorithm__tools_off 7cfe43372695f13d2a39c157ae2d9676[]
reference__snpeff__GRCh37_75 File[]
config__algorithm__svvalidate String[]
config__algorithm__trim_reads String[]
config__algorithm__recalibrate Boolean[]
config__algorithm__svprioritize String[]
config__algorithm__variantcaller 0dc19abada8baaa435cc66844aac7e9d[]
genome_resources__aliases__human Boolean[]
genome_resources__variation__esp File[]
genome_resources__variation__lcr File[]
genome_resources__aliases__snpeff String[]
genome_resources__variation__exac File[]
config__algorithm__exclude_regions 0048c3f11e7d35021fbf00a1b0c02b80[]
config__algorithm__mark_duplicates Boolean[]
config__algorithm__variant_regions File[]
genome_resources__aliases__ensembl String[]
genome_resources__rnaseq__gene_bed File[]
genome_resources__variation__1000g File[]
genome_resources__variation__dbsnp File[]
genome_resources__variation__polyx File[]
config__algorithm__align_split_size String[]
config__algorithm__nomap_split_size Long[]
config__algorithm__validate_regions File[]
genome_resources__variation__cosmic File[]
config__algorithm__coverage_interval String[]
genome_resources__variation__clinvar File[]
config__algorithm__min_allele_fraction Double[]
config__algorithm__nomap_split_targets Long[]
genome_resources__variation__train_hapmap File[]
genome_resources__variation__train_indels File[]
genome_resources__variation__encode_blacklist File[]

Steps

ID Runs Label Doc
agha

Outputs

ID Type Label Doc
workflow_output_file File
Permalink: https://w3id.org/cwl/view/git/afd674a6d64fb4e115c0b3fe95b7bb1b73ec69a9/wes-agha-test/checker-workflow-wrapping-tool.cwl