Marius Pachitariu

https://github.com/MouseLand/Kilosort2 Let me know if you have any questions about the transition from KS1 to KS2.

discard artifacts

2

For example as brought up in #98. This could either be a pre-processing step on the raw data, or a step during template matching to ensure spikes are not matched...

broken similarity matrix after auto-merges

1

Auto-merges are supposed to work exactly like manual merges, but something seems to be broken.

To enforce that clusters are localized, in cases where that information helps clustering.

add dendrites/boutons detection mode

2

This mode changes a number of settings together: connected = 0 overlap = 1.0 threshold_scaling = 0.5

update cell detection algorithm to incremental version

1

Iteratively enlarge ROIs and re-estimate timecourses/PC coefficients. This takes care of elongated ROIs, prevents splits, and generally fits the data better due to the iterative refinement. This is the same...

merging dendrites

14

Several users would like Suite2p to merge together segments of dendrites from the same neuron.

Create defaults as well, consider replacing cmpct completely.

Whatever Matlab is doing, new versions have limited more and more the size of the maximum batch to do the ffts. This should not be a difficult operation, so we...

FEATURE: multishank capabilities

6

### Feature you'd like to see: Right now we are telling users to stack the shanks of probes vertically on top of each other, which seems to work pretty well...