nf-core_modules/modules/bowtie/align/meta.yml

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name: bowtie_align
description: Align reads to a reference genome using bowtie
keywords:
- align
- fasta
- genome
- reference
tools:
- bowtie:
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description: |
bowtie is a software package for mapping DNA sequences against
a large reference genome, such as the human genome.
homepage: http://bowtie-bio.sourceforge.net/index.shtml
documentation: http://bowtie-bio.sourceforge.net/manual.shtml
arxiv: arXiv:1303.3997
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input:
- meta:
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type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
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- reads:
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type: file
description: |
List of input FastQ files of size 1 and 2 for single-end and paired-end data,
respectively.
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- index:
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type: file
description: Bowtie genome index files
pattern: "*.ebwt"
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output:
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- bam:
type: file
description: Output BAM file containing read alignments
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pattern: "*.{bam}"
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- version:
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type: file
description: File containing software version
pattern: "versions.yml"
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- fastq:
type: file
description: Unaligned FastQ files
pattern: "*.fastq.gz"
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authors:
- "@kevinmenden"