genotypeSummary(1)

Usage

genotypeSummmary –type PL –target 0,1,2,3,4,5,6,7 –file my.vcf –snp

Generates a table of genotype counts. Summarizes genotype counts for bi-allelic SNVs and indel

: output: table of genotype counts for each individual. required: t,target -- a zero based comma separated list of target individuals corresponding to VCF columns required: f,file -- proper formatted VCF required, y,type -- genotype likelihood format; genotype : GL,PL,GP optional, r,region -- a tabix compliant region : chr1:1-1000 or chr1 optional, s,snp -- Only count SNPs optional, a,ancestral -- describe counts relative to the ancestral allele defined as AA in INFO Type: statistics

3 releases since Debian 11 (Bullseye); the text changed 2 times.