nf-core_modules/software/SOFTWARE/TOOL/meta.yml

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2020-08-06 10:32:18 +00:00
name: bwa mem
description: Performs fastq alignment to a fasta reference using the burrows-wheeler aligner
keywords:
- mem
- bwa
- alignment
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:
-
- id:
type: val
description: read/read pair id
- reads:
type: file
description: Input fastq file
pattern: "*.{fastq,fq}"
- index:
type: file
description: bwa indexes file
pattern: "*.{amb,ann,bwt,pac,sa}"
- prefix:
type: val
description: bwa index prefix, equivalent to index file names without extensions. Usually the reference genome file name unless otherwise specified.
output:
-
- bam:
type: file
description: Output bam file
pattern: "*.bam"
- bamindex:
type: file
description: Output bam index file
pattern: "*.bai"
authors:
- "@jeremy1805"