This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Is There Any Tool Available To Convert Vcf Format To Gatk Verbose Type Format?

Do you know of any tool that can convert VCF format for variant calls to GATK verbose style format (Start and stop coordinates with insertion or deletion prefixed by + or -) which is easier to read for indels.

VCF:            
---
1     978603  .       CCT     C

GATK Verbose:
--------
1     978603     978605    -CT

Thanks

vcf variant gatk format conversion
• 3,590 views • link
updated by Swbarnes2 Swbarnes2 • written by Prateek Prateek

1 answer

Annovar converts vcf's to something that looks a lot like that. You could try that.

• 0 views • link
written by Swbarnes2 Swbarnes2

Log in to answer this question.

More posts like this