nf-core_modules/modules/bcftools/mpileup/meta.yml

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name: bcftools_mpileup
description: Compresses VCF files
keywords:
- variant calling
- mpileup
- VCF
tools:
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- mpileup:
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description: |
Generates genotype likelihoods at each genomic position with coverage.
homepage: http://samtools.github.io/bcftools/bcftools.html
documentation: http://www.htslib.org/doc/bcftools.html
doi: 10.1093/bioinformatics/btp352
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- bam:
type: file
description: Input BAM file
pattern: "*.{bam}"
- fasta:
type: file
description: FASTA reference file
pattern: "*.{fasta,fa}"
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output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- vcf:
type: file
description: VCF gzipped output file
pattern: "*.{vcf.gz}"
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- tbi:
type: file
description: tabix index file
pattern: "*.{tbi}"
- stats:
type: file
description: Text output file containing stats
pattern: "*{stats.txt}"
- version:
type: file
description: File containing software version
pattern: "*.{version.txt}"
authors:
- "@joseespinosa"
- "@drpatelh"