nf-core_modules/modules/methyldackel/extract/meta.yml
Matthias Hörtenhuber e745e167c1
Fix formatting in yaml files, add yamllint config (#1279)
* fix yml formatting

* allow fastq.gz and fq.gz as file input, add meta.yml and test

* fix yaml files

* Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test"

This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4.

* prettier magic!

* fix comments for yamllint

* remove node version number

* fix linting errors

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2022-02-15 11:15:27 +00:00

58 lines
1.4 KiB
YAML

name: methyldackel_extract
description: Extracts per-base methylation metrics from alignments
keywords:
- methylation
- 5mC
- methylseq
- bisulphite
- consensus
- bedGraph
- bam
- cram
tools:
- methyldackel:
description: |
A (mostly) universal methylation extractor
for BS-seq experiments.
homepage: https://github.com/brentp/bwa-meth
documentation: https://github.com/brentp/bwa-meth
arxiv: arXiv:1401.1129
licence: ["MIT"]
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- fasta:
type: file
description: Input genome fasta file
pattern: "*.{fasta,fa}"
- fai:
type: file
description: FASTA index file
pattern: "*.{fai}"
- bam:
type: file
description: BAM/CRAM file
pattern: "*.{bam,cram}"
- bai:
type: file
description: BAM/CRAM index file
pattern: "*.{bai,crai}"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bedgraph:
type: file
description: bedGraph file containing per-base methylation metrics
pattern: "*.{bedGraph}"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@phue"