Generate Hardy-Weinberg statistics for provided input
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ] meta is associated to PLINK native files input
bed
:file
PLINK binary biallelic genotype table file
*.{bed}
bim
PLINK extended MAP file
*.{bim}
fam
PLINK sample information file
*.{fam}
meta2
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ] meta2 is associated to VCF files input
vcf
VCF format input file
*.{vcf} | *{vcf.gz}
meta3
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ] meta is associated to BCF files input
bcf
BCF format input file
*.{bcf}
hwe
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
*.hwe
Summary file containing observed vs expected heterozygous frequencies and the p-value of the hardy-weinberg statistics
versions_plink
${task.process}
:string
The name of the process
plink
The name of the tool
plink --version 2>&1 | sed 's/^PLINK v//;s/ .*//'
:eval
The expression to obtain the version of the tool
versions
Whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner.
