nf-core_modules/modules/glimpse/chunk/meta.yml

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name: "glimpse_chunk"
description: Defines chunks where to run imputation
keywords:
- chunk
- imputation
tools:
- "glimpse":
description: "GLIMPSE is a phasing and imputation method for large-scale low-coverage sequencing studies."
homepage: "https://odelaneau.github.io/GLIMPSE"
documentation: "https://odelaneau.github.io/GLIMPSE/commands.html"
tool_dev_url: "https://github.com/odelaneau/GLIMPSE"
doi: "10.1038/s41588-020-00756-0"
licence: "['MIT']"
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- input:
type: file
description: |
Target dataset in VCF/BCF format defined at all variable positions.
The file could possibly be without GT field (for efficiency reasons a file containing only the positions is recommended).
pattern: "*.{vcf,bcf}"
- region:
type: string
description: |
Target region, usually a full chromosome (e.g. chr20:1000000-2000000 or chr20).
For chrX, please treat PAR and non-PAR regions as different choromosome in order to avoid mixing ploidy.
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- txt:
type: file
description: Tab delimited output txt file containing buffer and imputation regions.
pattern: "*.{txt}"
authors:
- "@louislenezet"