Description

List unique genotypes. Like GNU uniq, but for VCF records. Remove records which have the same position, ref, and alt as the previous record.

Input

name:type
description
pattern

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

vcf{:bash}

:file

Compressed VCF file

*.vcf.gz

tbi{:bash}

:file

Index of VCF file

*.vcf.gz.tbi

Output

name:type
description
pattern

vcf{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.vcf.gz

*.vcf.gz{:bash}

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.vcf.gz

versions_vcflib{:bash}

${task.process}{:bash}

:string

The name of the process

vcflib{:bash}

:string

The name of the tool

1.0.14{:bash}

:string

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions{:bash}

${task.process}{:bash}

:string

The name of the process

vcflib{:bash}

:string

The name of the tool

1.0.14{:bash}

:string

The expression to obtain the version of the tool

Tools

included in
viralrecon
maintainer
Github user drpatelh
get in touch
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