Question: Modifying genome GTF file based on vcf information
gravatar for jihwan8611
20 months ago by
jihwan86110 wrote:

Hello, I'm trying to generate new reference annatoation file(GTF) of sub-population (or ecotype). Currently, I have reference genome annotation file(GTF) and vcf file from the sub-population. but I am now afraid using current reference genome annotation file(GTF) becuse indels would ruine the orignal coordinates of GTF.

So Is there any tools for shift orginal GTF coordinate base on VCF ?

Thank you very much!

ADD COMMENTlink written 20 months ago by jihwan86110

I have the same problem:) Did you find a solution?

ADD REPLYlink written 19 months ago by grant.hovhannisyan1.4k
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