% VCFGENO2HAPLO(1) vcfgeno2haplo (vcflib) | vcfgeno2haplo (VCF transformation) % Erik Garrison and vcflib contributors
vcfgeno2haplo
vcfgeno2haplo [options] []
Convert genotype-based phased alleles within --window-size into haplotype alleles. Will break haplotype construction when encountering non-phased genotypes on input.
options:
-h, --help Print this message
-v, --version Print version
-r, --reference FILE FASTA reference file
-w, --window-size N Merge variants at most this many bp apart (default 30)
-o, --only-variants Don't output the entire haplotype, just concatenate
REF/ALT strings (delimited by ":")
Type: transformation
0 : Success
not 0 : Failure
vcflib(1)
Copyright 2011-2023 (C) Erik Garrison and vcflib contributors. MIT licensed.