mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 02:58:17 +00:00
e745e167c1
* 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>
52 lines
1.3 KiB
YAML
52 lines
1.3 KiB
YAML
name: bwameth_align
|
|
description: Performs alignment of BS-Seq reads using bwameth
|
|
keywords:
|
|
- bwameth
|
|
- alignment
|
|
- 3-letter genome
|
|
- map
|
|
- methylation
|
|
- 5mC
|
|
- methylseq
|
|
- bisulphite
|
|
- fastq
|
|
- bam
|
|
tools:
|
|
- bwameth:
|
|
description: |
|
|
Fast and accurate alignment of BS-Seq reads
|
|
using bwa-mem and a 3-letter genome.
|
|
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 ]
|
|
- reads:
|
|
type: file
|
|
description: |
|
|
List of input FastQ files of size 1 and 2 for single-end and paired-end data,
|
|
respectively.
|
|
- index:
|
|
type: dir
|
|
description: Directory containing bwameth genome index
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- bam:
|
|
type: file
|
|
description: Output BAM file containing read alignments
|
|
pattern: "*.{bam}"
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@phue"
|