Electrophysiology setup
Electrophysiology setup to use the Lead-OR platform
- 1.
- 2.Custom Plug-Ins: The following plug-ins should be installed to use the platform: OpenEphysIGTLink, OpenEphysLeadOR and OpenEphysRMS.
- 3.Data source: the OpenEphysNeuroOmega plug-in (which requires the NeuroOmega SDK; Windows only) provides an interface to use the NeuroOmega device in real-time. To test the platform, example recordings can be downloaded from here, and streamed to OpenEphys via the built-in File Readed plug-in.
The links above describe the different ways to install the plug-ins. Here, only the one via github cli is described. Install github cli and run the following commands to install the plug-ins:
gh release download --clobber --dir "C:\ProgramData\Open Ephys\plugins-api8" --pattern *.dll --repo netstim/OpenEphysNeuroOmega
gh release download --clobber --dir "C:\ProgramData\Open Ephys\shared-api8" --pattern *.dll --repo netstim/OpenEphysIGTLink
gh release download --clobber --dir "C:\ProgramData\Open Ephys\plugins-api8" --pattern *.dll --repo netstim/OpenEphysLeadOR
gh release download --clobber --dir "C:\ProgramData\Open Ephys\plugins-api8" --pattern *.dll --repo netstim/OpenEphysRMS
gh release download --clobber --dir ~/Library/Application\ Support/open-ephys/shared-api8 --pattern *.dylib --repo netstim/OpenEphysIGTLink;\
gh release download --clobber --dir ~/Library/Application\ Support/open-ephys/plugins-api8 --pattern *.bundle.zip --repo netstim/OpenEphysLeadOR;\
gh release download --clobber --dir ~/Library/Application\ Support/open-ephys/plugins-api8 --pattern *.bundle.zip --repo netstim/OpenEphysRMS;\
unzip -o ~/Library/Application\ Support/open-ephys/plugins-api8/*.bundle.zip -d ~/Library/Application\ Support/open-ephys/plugins-api8/
OpenEphys has a modular framework to create custom processing pipelines. Here, the default processing pipeline for Lead-OR is described. Although this example is done with example recordings, the File Reader plug-in can be replaced by the OpenEphysNeuroOmega plug-in for a novel real-time scenario.
- 1.Open OpenEphys GUI
- 2.Drag-and-drop the following plug-ins in order from the left Processors list to the Signal Chain and follow the instructions:
- 1.File Reader
- 2.Bandpass Filter
- Click on Channels and select all.
- Default 300 to 6000 bandpass should be ok.
- 3.LFP Viewer
- 4.Root Mean Square
- Click on Channels and select all.
- Set window_ms to 3000.
- 5.Lead-OR
- Click on Channels and select all.
- Check feature and set feature_name to RMS
- See next page for the following instructions.
See following screenshot for reference:
OpenEphys signal chain.
Last modified 2mo ago