The documentation states that the gene-level copy number values in the DepMap download are log2(copy_ratio + 1). Presumably copy_ratio = copy_number/2, in which case it is easy to compute quantitative gene-level copy number values. Can anyone provide guidance on thresholds for classifying gains and losses? For example, the GISTIC pipeline produced both quantitative and discrete copy number calls (-2 = homozygous deletion, -1 = heterozygous deletion, 0 = copy neutral, 1 = low gain, 2 = high gain) for the various TCGA cohorts. The general consensus is that -0.1 and 0.1 were thresholds for classifying gains and losses, respectively, based on the quantitative gene-level copy number values from GISTIC. However, these values went through an extensive normalization procedure, so I don’t think there’s no reason to expect the same thresholds to be applicable to the CCLE data. Any thoughts would be greatly appreciated.