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CombineVariants - duplicate reads are generated for the same chr:pos

ravichavravichav United StatesMember

I am merging two VCFs. the records are as below

VCF1:
CHROM POS ID REF ALT QUAL
1 1247578 . TG TGG,TGGG,TGGGG,TGGGGG,T,TGGGGGG 53367.32

VCF2:
CHROM POS ID REF ALT QUAL
1 1247578 . TG T,TGG,TGGG,GG,TGGGGGGGG,TGGGGGG 228139.69

The combined VCF is generating these lines as is. They are not mrged into one. Is it because of the order of Alt alleles? IS there a way to get the merge work properly?

Issue · Github
by shlee

Issue Number
1552
State
closed
Last Updated
Assignee
Array
Milestone
Array
Closed By
chandrans

Answers

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