mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 11:08:17 +00:00
906577873b
* New functions.nf * Convert code to create versions.yml * Update meta.yml * update output channel * Fix more meta.yml * Manually update remaining modules * remove superflous echo * Fix misformatted meta.yml files * Fix yaml, was list instead of dict * fix version for bcftools Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
45 lines
1.2 KiB
YAML
45 lines
1.2 KiB
YAML
name: bwa_mem
|
|
description: Performs fastq alignment to a fasta reference using BWA
|
|
keywords:
|
|
- mem
|
|
- bwa
|
|
- alignment
|
|
- map
|
|
- fastq
|
|
- bam
|
|
- sam
|
|
tools:
|
|
- bwa:
|
|
description: |
|
|
BWA is a software package for mapping DNA sequences against
|
|
a large reference genome, such as the human genome.
|
|
homepage: http://bio-bwa.sourceforge.net/
|
|
documentation: http://www.htslib.org/doc/samtools.html
|
|
arxiv: arXiv:1303.3997
|
|
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: file
|
|
description: BWA genome index files
|
|
pattern: "Directory containing BWA index *.{amb,ann,bwt,pac,sa}"
|
|
output:
|
|
- bam:
|
|
type: file
|
|
description: Output BAM file containing read alignments
|
|
pattern: "*.{bam}"
|
|
- version:
|
|
type: file
|
|
description: File containing software version
|
|
pattern: "versions.yml"
|
|
authors:
|
|
- "@drpatelh"
|
|
- "@jeremy1805"
|