vcf phasing
0
0
Entering edit mode
5 weeks ago
safeassli ▴ 10

Hello, I'm currently looking to phase my normalized vcf file. It's worth noting that I'm working with non-human organisms and utilizing reference gene sequences.

I've previously experimented with WhatsHap; however, I observed that it doesn't phase genotypes labeled as 0/0. Considering this limitation, I'm exploring alternative tools for phasing. I'm uncertain whether Beagle would be suitable for my specific case. Any suggestions or insights on alternative tools would be greatly appreciated. Thank you!

beagle WhatsHap phasing • 241 views
ADD COMMENT
0
Entering edit mode

I observed that it doesn't phase genotypes labeled as 0/0

How could such a genotype even be phased?

ADD REPLY
0
Entering edit mode

Sprry but I'm not an expert in this field. I'm trying to learn Only 0/1, 1/0, and 1/1 genotypes should be phased, as these indicate the presence of the alternative allele ?

ADD REPLY

Login before adding your answer.

Traffic: 2710 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6