Provided by: vcftools_0.1.16-1_amd64
vcf-phased-join - take multiple overlapping pre-phased chunks and concatenates them into one VCF
vcf-phased-join [OPTIONS] A.vcf B.vcf C.vcf
About: The script takes multiple overlapping pre-phased chunks and concatenates them into one VCF using heterozygous calls from the overlaps to determine correct phase.
-j, --min-join-quality <num> Quality threshold for gluing the pre-phased blocks together  -l, --list <file> List of VCFs to join. -o, --output <file> Output file name. When "-" is supplied, STDOUT and STDERR will be used -q, --min-PQ <num> Break pre-phased segments if PQ value is lower in input VCFs [0.6] -h, -?, --help This help message