somatic variant calling

Hi everyone,

I'm dealing with a targeted genome sequencing on ovarian tumor samples. I'd like to know which tool should I use to perform variant calling and which one to annotate variants?

Thanks in advance

variant calling

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updated 5.1 years ago by ATpoint

• written 5.1 years ago by Elisa •

How about the nextflow pipeline sarek which does all that.

https://github.com/nf-core/sarek

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written 5.1 years ago by ATpoint

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