VCFLD(1) vcfld (VCF transformation) VCFLD(1) NAME vcfld SYNOPSIS vcfld -target 0,1,2,3,4,5,6,7 -background 11,12,13,16,17,19,22 -file my.vcf -e -d -r DESCRIPTION Compute LD OPTIONS required: t,target -- argument: a zero base comma separated list of target individuals corresponding to VCF columns required: b,background -- argument: a zero base comma separated list of background individuals corresponding to VCF columns required: f,file -- argument: a properly formatted phased VCF file required: y,type -- argument: type of genotype likelihood: PL, GL or GP optional: w,window -- argument: window size to average LD; default is 1000 optional: e,external -- switch: population to calculate LD expectation; default is target optional: d,derived -- switch: which haplotype to count "00" vs "11"; default "00", Type: transformation EXIT VALUES 0 Success not 0 Failure SEE ALSO vcflib(1) OTHER LICENSE Copyright 2011-2025 (C) Erik Garrison and vcflib contributors. MIT li- censed. Copyright 2020-2025 (C) Pjotr Prins. AUTHORS Erik Garrison and vcflib contributors. vcfld (vcflib) VCFLD(1)
NAME | SYNOPSIS | DESCRIPTION | OPTIONS | EXIT VALUES | SEE ALSO | OTHER | LICENSE | AUTHORS
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