This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Vaast Script (Perl / Shell)

I am trying to use VAAST (www.yandell-lab.org) for Variant Annotation, and Analysis.

I was wondering if anyone knows any Shell / Perl script or practical that I can use to incorporate it in my pipeline.

Appreciate your comments.

Thanks,

script pipeline annotation
• 2,370 views • link
updated by Zev.Kronenberg Zev.Kronenberg • written by Mpiro • Mpiro

Your question is unclear. Are you looking for existing scripts to use in a pipeline, or a resource for learning sh/perl scripting in general?

• 0 views • link
written by Neilfws Neilfws

1 answer

Currently I don't believe our lab has any scripts that will do this. What are you trying to accomplish?

-Zev Yandell Lab

• 1 views • link
written by Zev.Kronenberg Zev.Kronenberg

VCFformat->GVFformat->VAT->VST->VAAST.

as for as making this process faster i like to create a giant CDR file and use ~/tools/vaast2/bin/vaasttools/cdrmanipulator.pl to pull out individuals.

• 0 views • link
written by Zev.Kronenberg Zev.Kronenberg

Log in to answer this question.

More posts like this