nf-core_modules/modules/checkm/lineagewf/meta.yml

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name: checkm_lineagewf
description: CheckM provides a set of tools for assessing the quality of genomes recovered from isolates, single cells, or metagenomes.
keywords:
- checkm
- mag
- metagenome
- quality
- isolates
- microbes
- single cells
- completeness
- contamination
- bins
- genome bins
tools:
- checkm:
description: Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes.
homepage: https://ecogenomics.github.io/CheckM/
documentation: https://github.com/Ecogenomics/CheckM/wiki
tool_dev_url: https://github.com/Ecogenomics/CheckM
doi: "10.1101/gr.186072.114"
licence: ['GPL v3']
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- fasta:
type: file
description: One or a list of multiple FASTA files of each bin, with extension defined with the fasta_ext value
pattern: "*.{$fasta_ext}"
- fasta_ext:
type: value
description: The file-type extension suffix of the input FASTA files (e.g., fasta, fna, fa, fas)
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'sample', bin:'1' ]
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- checkm_output:
type: directory
description: CheckM output directory
pattern: "*/"
- checkm_tsv:
type: file
description: CheckM summary completeness statistics table
pattern: "*.tsv"
authors:
- "@jfy133"