Support for ndx-events.Events and pynwb.behavior.BehavioralEpochs

[pauladkisson]

See https://neurosift.app/?p=/nwb&url=https://api.dandiarchive.org/api/assets/7d1990d7-a714-406e-9cb2-1b8f4015869e/download/&dandisetId=000971&dandisetVersion=draft
for events
and https://neurosift.app/?p=/nwb&url=https://api.dandiarchive.org/api/assets/7d1990d7-a714-406e-9cb2-1b8f4015869e/download/&dandisetId=000971&dandisetVersion=draft
for BehavioralEpochs

[pauladkisson]

Has there been any progress on this? Are there any blockers I can help with?

Also a note: ndx_events.Events is specifically from version 0.2.0

[magland]

Hi @pauladkisson I've been working on some other things so probably won't get to this for a little while. Do you know typescript/react? I can point you to the relevant code if you want to take a look.

[pauladkisson]

Do you know typescript/react? I can point you to the relevant code if you want to take a look.

Unfortunately I do not.

But thank you for the update.

[magland]

Could you describe what the views should look like?

For processing/behavior/behavioral_epochs/reward_port_intervals
We have the IntervalSeries view:
https://neurosift.app/?p=/nwb&url=https://api.dandiarchive.org/api/assets/7d1990d7-a714-406e-9cb2-1b8f4015869e/download/&dandisetId=000971&dandisetVersion=draft&tab=neurodata-item:/processing/behavior/behavioral_epochs/reward_port_intervals|IntervalSeries

[pauladkisson]

I would suggest an analog to matplotlib.pyplot.eventplot for the Events and filled region for the IntervalSeries.

For example, see my example notebook.

[pauladkisson]

Bumping this bc my current conversion also needs ndx-events.Events visualization: https://neurosift.app/?p=/nwb&url=https://api.dandiarchive.org/api/assets/7f969b84-db9b-48ab-8935-b1ca21f5b607/download/&dandisetId=001259&dandisetVersion=draft

[magland]

@pauladkisson I think that Dandiset is embargoed. Would you be able to give me access?

[pauladkisson]

Yes, you are right it is embargoed. You should have access now.

[magland]

@pauladkisson I have added a simple view plugin for the ndx-events/Events type.

https://neurosift.app/?p=/nwb&url=https://api.dandiarchive.org/api/assets/7f969b84-db9b-48ab-8935-b1ca21f5b607/download/&dandisetId=001259&dandisetVersion=draft&tab=neurodata-items:neurodata-item:/processing/behavior/targetOUT|Events@neurodata-item:/processing/behavior/toneIN|Events@neurodata-item:/processing/behavior/toneOUT|Events@neurodata-item:/processing/behavior/valve|Events

Let me know what the next iteration should be.

[pauladkisson]

Events look good to me!

[pauladkisson]

Not strictly related to this issue, but what is going on with the encoder time series plot: https://neurosift.app/?p=/nwb&url=https://api.dandiarchive.org/api/assets/7f969b84-db9b-48ab-8935-b1ca21f5b607/download/&dandisetId=001259&dandisetVersion=draft&tab=neurodata-items:neurodata-item:/processing/behavior/targetOUT%7CEvents@neurodata-item:/processing/behavior/toneIN%7CEvents@neurodata-item:/processing/behavior/toneOUT%7CEvents@neurodata-item:/processing/behavior/valve%7CEvents

I'm not seeing any time series, which is especially weird since the lick time series viz seems to be working just fine: https://neurosift.app/?p=/nwb&url=https://api.dandiarchive.org/api/assets/7f969b84-db9b-48ab-8935-b1ca21f5b607/download/&dandisetId=001259&dandisetVersion=draft&tab=neurodata-items:neurodata-item:/processing/behavior/targetOUT%7CEvents@neurodata-item:/processing/behavior/toneIN%7CEvents@neurodata-item:/processing/behavior/toneOUT%7CEvents@neurodata-item:/processing/behavior/valve%7CEvents

[magland]

I think it's probably due to some NaN's that NS is choking on. Perhaps open a separate issue for that?

[pauladkisson]

See new issue here: #219

[pauladkisson]

So ndx-events.Events works now, but pynwb.behavior.BehavioralEpochs is still broken. Would you like me to close this issue and open up a new one just for pynwb.behavior.BehavioralEpochs?

[magland]

So ndx-events.Events works now, but pynwb.behavior.BehavioralEpochs is still broken. Would you like me to close this issue and open up a new one just for pynwb.behavior.BehavioralEpochs?

That would be helpful thanks.

[pauladkisson]

See new issue: #220