I have two queries w.r.t ASCAT CNV data:
How does one go about getting the total copy number for a given locus or chromosome from the ASCAT CNV.output results. What is the optimal way to filter the dataset to reduce the noise?
I would like to compare my dataset with some TCGA results for my cancer and to this end - I would like to get the ASCAT CNV data in .seg format to do some concordance analysis.
Thank you for your help! PP