This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Ngs : how check if two samples come frome the same family?

Hello all,

I have exome data and genome data from about 200 patients. none of them are supposed to be from the same family, but is there a tool to test this? I tried to search but couldn't find a tool that really answers my question.

Thanks in advance.

exome family genome
• 1,390 views • link
updated by ATpoint ATpoint • written by quentin54520 • quentin54520

1 answer

have a look at somalier: https://github.com/brentp/somalier

• 0 views • link
written by Pierre Lindenbaum Pierre Lindenbaum

Thank you very much, this is exactly what I was looking for. I hope it's fast enough on a classic computer, because without conda I'm not sure if it's possible to install it on a (slurm) cluster ...

• 0 views • link
written by quentin54520 • quentin54520

The GitHub repo has a link to a Docker image you can use, and if the server does not allow Docker it might have Singularity installed, but conda should be possible as it requires no root permissions.

• 0 views • link
written by ATpoint ATpoint

Log in to answer this question.

More posts like this