markovmodel/deeptime

A question about whitening/centering transformations

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gongshuai0606 commented

Hi, it seems that the line 340 x = x.mm(self.mul) of deeptime/time-lagged-autoencoder/tae/utils.py should be x = self.mul.mm(x) according to Zero-phase Component Analysis Whitening formula Z=VD^(−1/2)V^TX

clonker commented

possibly, however this project is not actively maintained anymore. i currently don't have the time to look into it, but you may check out https://github.com/deeptime-ml/deeptime .

YunruiQIU commented

Not really, that depends on the shape of input trajectories/ featurized data, obviously, the codes of time-lagged autencoder codes are based on data which has shape (length, dimensions of features/coordinates). So original codes should be right.

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gongshuai0606 commented

Not really, that depends on the shape of input trajectories/ featurized data, obviously, the codes of time-lagged autencoder codes are based on data which has shape (length, dimensions of features/coordinates). So original codes should be right.

Thank you very much. I understand now