nf-core_modules/modules/haplocheck/meta.yml
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Co-authored-by: Anders Jemt <jemten@users.noreply.github.com>
2022-06-07 14:09:04 -03:00

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YAML

name: "haplocheck"
description: |
Haplocheck detects contamination patterns in mtDNA AND WGS sequencing studies by analyzing
the mitochondrial DNA. Haplocheck also works as a proxy tool for nDNA studies and provides
users a graphical report to investigate the contamination further. Internally, it uses the
Haplogrep tool, that supports rCRS and RSRS mitochondrial versions.
keywords:
- mitochondrial
- mtDNA
- contamination
tools:
- "haplocheck":
description: "Detects in-sample contamination in mtDNA or WGS sequencing studies by analyzing the mitochondrial content."
homepage: "https://github.com/genepi/haplocheck"
documentation: "https://github.com/genepi/haplocheck"
tool_dev_url: "https://github.com/genepi/haplocheck"
doi: 10.1101/gr.256545.119
licence: "['MIT']"
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- vcf:
type: file
description: VCF file
pattern: "*.{vcf.gz}"
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: Raw report in txt format
pattern: "*.{txt}"
- html:
type: file
description: Haplocheck HTML report
pattern: "*.{html}"
authors:
- "@lmtani"