Dendritic ROI Segmentation

[wisamreid]

I am interested in segmenting and separating somatic and dendritic ROIs. While I see some discussions here, I haven't been able to find much documentation on using suite2p for this. Could someone give me a pointer to any resources on this? I haven't had much luck playing around with the ops file parameters/dendrite mode in the GUI? Any help would be much appreciated.

[carsen-stringer]

are you using the latest version of suite2p? we've had success with dendrites if the recording is sufficiently long -- suite2p looks for ROIs that are correlated in time so there need to be a few transients to isolate a dendrite

[samaramiller]

Hi @carsen-stringer, how long is sufficiently long? Trying to detect axons with suite2p. Pretty good so far but wondering how/ if I can improve it in any way. Thanks!

[carsen-stringer]

depends on how many events you have, you could also try decreasing the binning during detection (set the "tau" smaller for example), or change the high-pass filtering in space up or down (ops["spatial_hp_detect"])