Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In
Question: Multiple VCF filtering
0
gravatar for deniselavezzari
6 weeks ago by
deniselavezzari • 0
deniselavezzari • 0 wrote:

Hi!

I have a vcf with 20 samples and I want to remove from it the variants that are commons (with the same zygosity) to all samples. How can I do it?

Thanks
illumina exom wgs vcf • 87 views
ADD COMMENT • link •
modified 6 weeks ago by RamRS ♦ 28k • written 6 weeks ago by deniselavezzari • 0
2
gravatar for RamRS
6 weeks ago by
RamRS ♦ 28k
Houston, TX
RamRS ♦ 28k wrote:

Use bcftools view with an exclude/include expression that operates on COUNT(GT="hom") as shown in the examples here: https://samtools.github.io/bcftools/bcftools.html#expressions
ADD COMMENT • link written 6 weeks ago by RamRS ♦ 28k

Thank you very much.

ADD REPLY • link written 6 weeks ago by deniselavezzari • 0

If an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accepted. You can accept more than one answer if they all work.

Upvote|Bookmark|Accept

ADD REPLY • link written 6 weeks ago by RamRS ♦ 28k
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 800 users visited in the last hour