ABBA-BABA(1) abba-baba (VCF genotype) ABBA-BABA(1) NAME abba-baba SYNOPSIS abba-baba -tree 0,1,2,3 -file my.vcf -type PL DESCRIPTION abba-baba calculates the tree pattern for four indviduals. This tool as- sumes reference is ancestral and ignores non abba-baba sites. The output is a boolian value: 1 = true , 0 = false for abba and baba. the tree argu- ment should be specified from the most basal taxa to the most derived. OPTIONS Example: D C B A \ / / / \ / / \ / \ / / / --tree A,B,C,D Output : 4 columns : 1. seqid 2. position 3. abba 4. baba required: t,tree -- a zero based comma separated list of target individuals corrisponding to VCF columns required: f,file -- a properly formatted VCF. required: y,type -- genotype likelihood format ; genotypes: GP,GL or PL; type: genotype 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. abba-baba (vcflib) ABBA-BABA(1)
NAME | SYNOPSIS | DESCRIPTION | OPTIONS | EXIT VALUES | SEE ALSO | OTHER | LICENSE | AUTHORS
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