WCFST(1) wcFst (VCF statistics) WCFST(1) NAME wcFst SYNOPSIS wcFst -target 0,1,2,3,4,5,6,7 -background 11,12,13,16,17,19,22 -file my.vcf -deltaaf 0.1 -type PL DESCRIPTION wcFst is Weir & Cockerham's Fst for two populations. Negative values are VALID, they are sites which can be treated as zero Fst. For more informa- tion see Evolution, Vol. 38 N. 6 Nov 1984. Specifically wcFst uses equa- tions 1,2,3,4. OPTIONS Output : 3 columns : 1. seqid 2. position 3. target allele frequency 4. background allele frequency 5. **wcFst** required: t,target -- argument: a zero based comma separated list of target individuals corrisponding to VCF columns required: b,background -- argument: a zero based comma separated list of background individuals corrisponding to VCF columns required: f,file -- argument: proper formatted VCF required, y,type -- argument: genotype likelihood format; genotype : GT,GL,PL,GP optional: r,region -- argument: a tabix compliant genomic range: seqid or seqid:start-end optional: d,deltaaf -- argument: skip sites where the difference in allele frequencies is less than deltaaf, default is zero Type: statistics 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. wcFst (vcflib) WCFST(1)
NAME | SYNOPSIS | DESCRIPTION | OPTIONS | EXIT VALUES | SEE ALSO | OTHER | LICENSE | AUTHORS
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