linking GATK to MUTECT

Dear all,

as I have just started working in the field of cancer genomics, I was wondering if anyone could recommend a good resource (possibly a LINUX shell template) for linking GATK and MUTECT in order to call somatic mutations in cancer samples ? many thanks,

-- bogdan

gatk

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written 10.7 years ago by Bogdan

Thanks Sean. Dear all, could I find some TEMPLATE CODE that will allow running MUTECT on each chromosome (or chromosome fragment)?

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updated 6.7 years ago by Ram

• written 10.6 years ago by Bogdan

You'll need to read the documentation.

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updated 6.7 years ago by Ram

• written 10.6 years ago by Sean Davis

1 answer

The mutect download page is here.

You'll need to make an account before being able to access it.

• 1 views • link

updated 6.7 years ago by Ram

• written 10.7 years ago by Sean Davis

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