Question: linking GATK to MUTECT
0
gravatar for Bogdan
4.6 years ago by
Bogdan1000
Palo Alto, CA, USA
Bogdan1000 wrote:

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 • 1.4k views
ADD COMMENTlink modified 4.6 years ago • written 4.6 years ago by Bogdan1000

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

ADD REPLYlink modified 7 months ago by RamRS27k • written 4.6 years ago by Bogdan1000

You'll need to read the documentation.

ADD REPLYlink modified 7 months ago by RamRS27k • written 4.6 years ago by Sean Davis26k
1
gravatar for Sean Davis
4.6 years ago by
Sean Davis26k
National Institutes of Health, Bethesda, MD
Sean Davis26k wrote:

The mutect download page is here.

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

ADD COMMENTlink modified 7 months ago by RamRS27k • written 4.6 years ago by Sean Davis26k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1139 users visited in the last hour