saving tracked unit output

[mariapfj]

If I wanted to use the updated version of unit tracking from expipe_plugin_cinpla in my septum_mec_novel pipeline, how would I go about obtaining the output from the nwb? septum_mec_novel relied on identify_neurons output to be stored as a separate action folder, but I have been unable to replicate this on my own. The existing version of identify_neurons in septum_mec_novel is the outdated version of unit tracking, which cannot separate correctly by depth and yields much fewer units, so I'd rather have unit tracking output saved as csv files if possible :)

[alejoe91]

Hi @mariapfj

After you tracked units across some daily sessions and saved them, a new column is saved to all unit tables that have been tracked. Here's how you can retrieve it:

from pynwb import NWBHDF5IO

nwb_path = "path-to-main.nwb"

io = NWBHDF5IO(nwb_path, mode="r")
nwbfile = io.read()
units = nwbfile.units
unique_daily_tracked_ids = units["daily_unit_id"][:]

io.close()