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tridesclous / tridesclous

offline/online spike sorting. Un logiciel de gauche qui ne fait pas d'amalgame entre la classe et la coquetterie.
http://tridesclous.readthedocs.io
MIT License
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Feature request: wavelet transform for feature extraction #143

Open subhacom opened 4 years ago

subhacom commented 4 years ago

In many cases where human eye can clearly see difference in spike shapes, after PCA they all get projected into a single blob that cannot be separated by clustering. Wavelet transform has been shown to perform better in such cases, but very few spike sorters allow this (e.g. wave_clus and combinato).

It will be great to have the option of using wavelets for feature extractions in tridesclous.

samuelgarcia commented 4 years ago

In openelextrophy a very old code I did long time ago I tested this wavelet feature project by copy/paste from wave_clust. (more or less 10 lines of code) I did not see any improvement. So I did not implement this in tridesclous.

A strength of tridesclous is that you can add very easily new methods for each steps (cluster, feature, peeler, that a comnibaison of methods for steps can be tested without pain).

Have a look to tridesclous/decomposition.py, you will see that that it is super easy to add new method like this wavelet tranform compression. I can help you if you want. Or if you send me an example in python or matlab I can do it my self also. We basically have implemnt a class tha follow the fit/predict workflow of sklearn.