how search in clinvar offline

Question

[mauribrunner]

Hello,

I downloaded the Clinvar database from here: ftp://ftp.ncbi.nlm.nih.gov/pub/clinvar/

I need to do very fast searches, integrated in a pipeline. I saw that there are files with different formats and versions, but I do not know exactly where to look for the clinical significance of my variants.

Has anyone already gone through this?

thank you.

regards

Answer 1

[ATpoint]

You can query the VCF files efficiently by coordinates using its index via tabix.

[mauribrunner]

Thank you very much for your answer, I tried it and it worked correctly. Anyway, I'm left wondering why there are so many files when the database is downloaded (xml files for example). regards!

[ATpoint]

That is all kinds of metadata and/or annotations.