I'm using ml_ms4alg in the context of SpikeTemplate. I have a simple 3 channel dataset which I'm sorting units on. When I save firings.mda or curate the results in phy through spikesorters.run_mountainsort4(), all units are assigned channel 0. The units however are on distinct channels (see attached image).
My three electrodes are 2 mm apart, so they are effectively independent. This occurs with adjacency_radius set to 0 or -1.
I was debugging and found that channel information is preserved within the firings array in ms4alg.MountainSort4(), but mountainsort4.py converts the sorting output to a spikeextractors.NumpySortingExtractor() object, which doesn't save channel information. Is this expected behavior within the SpikeTemplate ecosystem, or is there a way to pass channel information along? It would be helpful to have this information for curation (e.g. combining multiple channel clusters to a single unit in phy).
Would it be possible to potentially save MS4 results as a MdaSortingExtractor object, to preserve channel information? Please let me know if I'm asking too much.
Hello -
I'm using
ml_ms4algin the context of SpikeTemplate. I have a simple 3 channel dataset which I'm sorting units on. When I savefirings.mdaor curate the results inphythroughspikesorters.run_mountainsort4(), all units are assigned channel 0. The units however are on distinct channels (see attached image).My three electrodes are 2 mm apart, so they are effectively independent. This occurs with
adjacency_radiusset to0or-1.I was debugging and found that channel information is preserved within the
firingsarray inms4alg.MountainSort4(), butmountainsort4.pyconverts the sorting output to aspikeextractors.NumpySortingExtractor()object, which doesn't save channel information. Is this expected behavior within the SpikeTemplate ecosystem, or is there a way to pass channel information along? It would be helpful to have this information for curation (e.g. combining multiple channel clusters to a single unit inphy).Would it be possible to potentially save MS4 results as a
MdaSortingExtractorobject, to preserve channel information? Please let me know if I'm asking too much.Thank you.