Is there a tool that can resolve by-sample indel genotypes from multiple samples to a multi-allelic VCF locus record?
Simple example of by-sample genotypes:
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT sample1
1 5 . ACG A . . . GT 0/1
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT sample2
1 6 . CG C . . . GT 0/1
Looking for a method that would resolve to this:
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT sample1 sample2
1 5 . ACG A,AC . . . GT 0/1 0/2
Simple example of by-sample genotypes:
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT sample1
1 5 . ACG A . . . GT 0/1
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT sample2
1 6 . CG C . . . GT 0/1
Looking for a method that would resolve to this:
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT sample1 sample2
1 5 . ACG A,AC . . . GT 0/1 0/2
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