Use $PnE data for flow cytometry data loaded with fcsparser to transform linearized log marker channels according to FCS3.1 specification

flow_transform_fragment.py

# code snipplet to implement PnE based transformation of flow data in python
data = FCSLogTransform().transform(data)
def logTransform(data):
    transCols = [c for c in data.columns if "LIN" not in c]
    for col, f in channel_info.items():
        if f["f1"]:
            data[col] = 10 ** (f["f1"] * data[col] / f["range"]) * f["f2"]
    print(transCols)
    print(data.min(axis=0), data.max(axis=0))
    data[transCols] = np.log10(data[transCols])
    return data

# data = logTransform(data)