nf-core_modules/modules/ensemblvep/meta.yml
2022-06-09 11:45:27 +02:00

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YAML

name: ENSEMBLVEP
description: Ensembl Variant Effect Predictor (VEP)
keywords:
- annotation
tools:
- ensemblvep:
description: |
VEP determines the effect of your variants (SNPs, insertions, deletions, CNVs
or structural variants) on genes, transcripts, and protein sequence, as well as regulatory regions.
homepage: https://www.ensembl.org/info/docs/tools/vep/index.html
documentation: https://www.ensembl.org/info/docs/tools/vep/script/index.html
licence: ["Apache-2.0"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- vcf:
type: file
description: |
vcf to annotate
- genome:
type: value
description: |
which genome to annotate with
- species:
type: value
description: |
which species to annotate with
- cache_version:
type: value
description: |
which version of the cache to annotate with
- cache:
type: file
description: |
path to VEP cache (optional)
- fasta:
type: file
description: |
reference FASTA file (optional)
pattern: "*.{fasta,fa}"
- extra_files:
type: tuple
description: |
path to file(s) needed for plugins (optional)
output:
- vcf:
type: file
description: |
annotated vcf
pattern: "*.ann.vcf"
- report:
type: file
description: VEP report file
pattern: "*.html"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@maxulysse"