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MouseLand / Kilosort

Fast spike sorting with drift correction
https://kilosort.readthedocs.io/en/latest/
GNU General Public License v3.0
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Parallel processing in KS #489

Closed ananmoran closed 8 months ago

ananmoran commented 2 years ago

Hi, I am using KS 3.0 for spike sorting of very long (days) Neuropixels recording. I am using quite a strong machine ~400GB RAM, 2 GPUs, and 20 CPUs, however, it seems that KS does not utilize the power the computer offers. I was wondering if there are some processes currently running serially that can speed up by utilizing parallel computing. I am not familiar enough with the algorithm of KS, but if there are processes that work on distinct batches of recording, these can be paralleled. If so, I will be happy to take part in a programming team to make it happen. Regardless, any suggestion to reduce the sorting time of neuropixels data will be appreciated (e.g. is it really necessary to high-pass filter NP data?)

Thanks in advance Anan Moran Tel Aviv University

QLs-Learning-Bot commented 5 months ago

Is there any update on CPU multi-threading?