Normalization for CCLE

[JudithBernett]

I think the normalisation for CCLE is wrong.

Original code:

# transfroms [0, -100] to [1,0] for curvecurator processing
def transform_activity_range(raw_df):
    raw_df["Activity Data (median)"] = raw_df["Activity Data (median)"] / 100 + 1
    raw_df["Amax"] = raw_df["Amax"] / 100 + 1

There is no explicit control column in the raw data, but there is this Amax value, which seems to be unique per cell line/drug combination. In the original supplementary methods, the authors state that

Amax is the maximal activity value reached within a model

In the raw data, Amax is kind of the maximum response; it is always close to the response value associated with the highest dose (8µM). So it seems to be a positive control rather than a negative control, like DMSO would be.

I think it should be

raw_df["response"] = 1 - raw_df["Activity Data (median)"]/raw_df["Amax"]