nf-core_modules/modules/bwa/samse/meta.yml

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name: bwa_samse
description: Convert bwa SA coordinate file to SAM format
keywords:
- bwa
- aln
- short-read
- align
- reference
- fasta
- map
- sam
- bam
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://bio-bwa.sourceforge.net/
doi: "10.1093/bioinformatics/btp324"
licence: ['GPL v3']
input:
- meta:
type: map
description: |
Groovy Map containing sample information.
e.g. [ id:'test', single_end:false ]
- reads:
type: file
description: FASTQ files specified alongside meta in input channel.
pattern: "*.{fastq,fq}.gz"
- sai:
type: file
description: SAI file specified alongside meta and reads in input channel.
pattern: "*.sai"
- index:
type: directory
description: Directory containing BWA index files (amb,ann,bwt,pac,sa) from BWA_INDEX
pattern: "bwa/"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- version:
type: file
description: File containing software version
pattern: "*.{version.txt}"
- bam:
type: file
description: BAM file
pattern: "*.bam"
authors:
- "@jfy133"