search

MouseLand / Kilosort

Fast spike sorting with drift correction
https://kilosort.readthedocs.io/en/latest/
GNU General Public License v3.0
478 stars 248 forks source link

Sorting comparison between 2.5 and 4 #634

Closed PadmasolaGuru closed 7 months ago

PadmasolaGuru commented 7 months ago

Describe the issue:

HI, I used Kilosort 2.5 for sorting out data recorded from Neuropixel 1.0 probe. After the release of Kilosort 4, I tried to run KS4 on the same data and compared the sorting quality. It seems that KS4 sorted quite large number of spikes compared to KS2.5. Although the number of Good and MUA clusters are fairly equal between both, but the number of total number spikes in Good clusters is atleast 50% less in KS4 compared to KS2.5. May I know if this is something we need to be concerned of. Attached is the image of comparison between KS2.5 and KS4.

KS comparison
marius10p commented 7 months ago

This will depend on your particular experimental prep, probe geometry, thresholds etc. What you can do is load them side by side in Phy and see if the extra good clusters in KS2.5 are actually good or not, and which units are not found in Kilosort4. With that information, you may be able to figure out what parameters to adjust if any (drift correction etc). We'll make a guide for evaluating and fixing problems, when we have time.

jacobpennington commented 7 months ago

Closing this for now, related to #642. If you have additional questions please let us know.