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

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name: "snapaligner_align"
description: Performs fastq alignment to a fasta reference using SNAP
keywords:
- alignment
- map
- fastq
- bam
- sam
tools:
- "snapaligner":
description: "Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data"
homepage: "http://snap.cs.berkeley.edu"
documentation: "https://1drv.ms/b/s!AhuEg_0yZD86hcpblUt-muHKYsG8fA?e=R8ogug"
tool_dev_url: "https://github.com/amplab/snap"
doi: "10.1101/2021.11.23.469039"
licence: "['Apache v2']"
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- reads:
type: file
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description: List of input fastq files of size 2 for paired fastq or 1 for bam or single fastq
pattern: "*.{fastq.gz,fq.gz,fastq,fq,bam}"
- index:
type: file
description: List of SNAP genome index files
pattern: "{Genome,GenomeIndex,GenomeIndexHash,OverflowTable}"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
- bam:
type: file
description: Aligned BAM file
pattern: "*.{bam}"
- bai:
type: file
description: Optional aligned BAM file index
pattern: "*.{bai}"
authors:
- "@matthdsm"