Right now the methods for CNA analysis are quite rough. We have log2ratio which is not properly converted into actual copy number, one may choose to keep it as is. Also, masking for centromeres/gaps should be added, as well as mask for zero-coverage regions (should be considered missing data or 0-CN regions?)
Right now the methods for CNA analysis are quite rough. We have log2ratio which is not properly converted into actual copy number, one may choose to keep it as is. Also, masking for centromeres/gaps should be added, as well as mask for zero-coverage regions (should be considered missing data or 0-CN regions?)