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cancerit / ascatNgs

Somatic copy number analysis using WGS paired end wholegenome sequencing
http://cancerit.github.io/ascatNgs/
GNU Affero General Public License v3.0
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How to make ASCAT input files #58

Closed rkumar87 closed 8 years ago

rkumar87 commented 8 years ago

I am very new to ASCAT. I have WGS sequencing data. Can you please tell me how to create ASCAT inputs (BAF and LogR files) from WGS data. What all i need to know or where i can find it?

Thanks

keiranmraine commented 8 years ago

The ascat.pl script handles the generation of the relevant files for the core ASCAT algorithm from a pair of Tumour/Normal BAM files:

https://github.com/cancerit/ascatNgs/wiki/Basic-usage

Please see the rest of the wiki too:

https://github.com/cancerit/ascatNgs/wiki