What is your solution for merging VCF 4.1 and VCF 4.2
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2.5 years ago
seta ★ 1.7k

Dear all,

I have got a multi-sample VCF file as VCF4.1 that should be merged to another multi-sample VCF file as VCF4.2. However, when I used bcftools merge, it says:

[W::bcf_hdr_merge] Trying to combine “AD” tag definitions of different lengths [W::bcf_hdr_merge] Trying to combine “MQ” tag definitions of different types Incorrect number of FORMAT /AD values at chr22:16180962, cannot merge. The tag is defined as Number=R, but found 3 values and 2 alleles

Could you please share me your idea to solve the issue?

Thanks

VCF4.1 VCF4.2 merge bcftools • 728 views
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