Allele frequency from maf files


I'm interested in the allele frequency and zygosity of the TCGA tumours in the Firehose maf files; is it appropriate to use the tumour allele columns to infer zygosity and frequency?

Thanks in advance,

Allele frequency from maf files

Hi Dave,

That approach won't work well. For a better approach, see our article in Cell:

Evolution and Impact of Subclonal Mutations in Chronic Lymphocytic Leukemia

Gordon Saksena