nf-core_modules/modules/pairtools/parse/meta.yml

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name: pairtools_parse
description: Find ligation junctions in .sam, make .pairs
keywords:
- parse
tools:
- pairtools:
description: CLI tools to process mapped Hi-C data
homepage: http://pairtools.readthedocs.io/
documentation: http://pairtools.readthedocs.io/
tool_dev_url: https://github.com/mirnylab/pairtools
doi: ""
licence: ["MIT"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bam:
type: file
description: BAM/CRAM/SAM file
pattern: "*.{bam,cram,sam}"
- chromsizes:
type: file
description: chromosome size file
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"
- pairsam:
type: file
description: parsed pair file
pattern: "*.{pairsam.gz}"
- stat:
type: file
description: stats of the pairs
pattern: "*.{pairsam.stat}"
authors:
- "@jianhong"