Question: How does bcftools isec do the intersection?
1
gravatar for Hadi M
16 months ago by
Hadi M30
Hadi M30 wrote:

Hi all,

I am just wondering how does bcftools isec do the intersection? Does it take account of other headers, e.g. REF and ALT, or it just look at the CHROM and POS and consider it as intersection despite the REF and ALT?

Thanks and cheers.

isec bcftools • 790 views
ADD COMMENTlink modified 16 months ago by finswimmer13k • written 16 months ago by Hadi M30
1
gravatar for finswimmer
16 months ago by
finswimmer13k
Germany
finswimmer13k wrote:

Hello Hadi M ,

bcftools isec takes CRHOM, POS, REF and ALT into account. But not the genotype.

fin swimmer

ADD COMMENTlink written 16 months ago by finswimmer13k
1

Hi- To add to your answer, maybe worth mentioning that with the option --collapse you can control what makes intersecting records compatible

ADD REPLYlink written 16 months ago by dariober11k

Thanks for the answers both of you :) Cheers.

ADD REPLYlink written 16 months ago by Hadi M30
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