hanasusak / cdriver Goto Github PK

Dear @hanasusak,

Thanks for your CCF calculation method, I found it very easy to use (and very applicable)! If you don't mind, I've a question related with BAF correction: why in values above 0.6 ccfPlody is again calculated (moreover, taking account a ploidy of 1 and not 2) instead of saturate final CCF values to 1 like in correction of BAFs between 0.5 and 0.6?

Thanks for your help. Regards.

Hi

I have calculated variant allele frequency (VAF) for my variants, I also have ploidy and purity for my each of my samples; Now, is it possible to calculate cancer cell fraction for my variants by CCF function?

Thank you

Hi. @luisgls @hanasusak
I want to estimate CCF using the CCF function but I found it required a input of CCF_CNV, which is defined as:
cancer cell fraction of somatic SNV in region with reported SNV.
I was truly confused since the CCF of each SNV was what I want from the CCF function. How to get the CCF_CNV or is it the same as purity? Why do all CCF_CNV equal 1 when ploidy is 2? Any correlation to nMajor or nMinor?
Thanks.