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meta.yml
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meta.yml
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# yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/subworkflows/yaml-schema.json
name: vcf_annotate_ensemblvep
description: Perform annotation with ensemblvep and bgzip + tabix index the resulting VCF file
keywords:
- vcf
- annotation
- ensemblvep
components:
- ensemblvep/vep
- tabix/tabix
input:
- ch_vcf:
description: |
vcf file to annotate
Structure: [ val(meta), path(vcf), [path(custom_file1), path(custom_file2)... (optionnal)] ]
- ch_fasta:
description: |
Reference genome fasta file (optional)
Structure: [ val(meta2), path(fasta) ]
- val_genome:
type: string
description: genome to use
- val_species:
type: string
description: species to use
- val_cache_version:
type: integer
description: cache version to use
- ch_cache:
description: |
the root cache folder for ensemblvep (optional)
Structure: [ val(meta3), path(cache) ]
- ch_extra_files:
description: |
any extra files needed by plugins for ensemblvep (optional)
Structure: [ path(file1), path(file2)... ]
output:
- vcf_tbi:
description: |
Compressed vcf file + tabix index
Structure: [ val(meta), path(vcf), path(tbi) ]
- json:
description: |
json file
Structure: [ val(meta), path(json) ]
- tab:
description: |
tab file
Structure: [ val(meta), path(tab) ]
- reports:
type: file
description: html reports
pattern: "*.html"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@maxulysse"
- "@matthdsm"
- "@nvnieuwk"
maintainers:
- "@maxulysse"
- "@matthdsm"
- "@nvnieuwk"