MOUSE_SCS

For mouse SCS procedures.

Quick Start

Following steps assume you are running an experiment for "Pilot_SCS_N_CEJ_03":

1. Start Intan RHX software. Select 20kHz for sample rate.
2. In RHX UI, click File > Load Settings and select Mouse_SCS.xml.
3. In RHX UI, click Network > Remote TCP Control, set Host to 127.0.0.1 and click Connect.
4. In MATLAB, navigate to C:/MyRepos/NML/Mouse_SCS.
5. Open experiment_2024_06_04.m and click Run from the Editor tab in the UI.
6. Open processing_2024_06_04.m.
7. Enter experimental parameters and click RUN from the stimulation controller GUI.
8. After each sweep, update the SWEEP constant at the top of processing_2024_06_04.m and then click Run from the Editor tab in the UI.

• This should generate a new Powerpoint for each sweep with the stimulus response curves, on the Google Drive mapped in parameters.m.

Contents

• Configuration
• Experiments
• Main Experiment Functions
• AM4100 Interface
• TMSi Interface
• Initializers
• Loaders
• Plotting

Important

• parameters - Return parameters struct, which sets default values for things like epoch durations etc.

Experiment Scripts

• example_run_experiment - Script for testing/setup prior to experiment.

Main Experiment Functions

• runStimRecSweep - Returns a table of the stim/rec sweep intensity and block indices.
• runStimRecSweepAllChannels - Returns a table of the stim/rec sweep intensity and block indices, for ALL channels. Requires Raspberry Pi v4b with Relay module to MUX the AM4100 anode to the stimulation channels.

AM4100 Functions

• AM4100_sendCommand - Send message to stimulator and return formatted response message.
• AM4100_setInterPhaseInterval - Sets the interval between the two phases of asymmetric/biphasic pulses.
• AM4100_setStimEventPeriodAndCount - Set the AM4100 stimulation event period and number of stimuli.
• AM4100_setStimParameters - Set the stimulation parameters for AM4100 experiment.
• AM4100_stimulate - Stimulate using the AM4100, while recording this event.

TMSi SAGA Controller Functions

• SAGA_impedances - Measure impedances on HD-EMG array(s).
• SAGA_record - Run and increment the recording for TMSi-SAGAs AND Plexon (do not manually increment Plexon!).
• SAGA_setBufferSize - Updates tmsi client recording buffer samples for the next record.
• SAGA_stop - Stop the current recording/running SAGA state.
• SAGA_updateFileNames - Update filenames for SAGA A and SAGA B devices.

Interface Initializers

• initAM4100 - Initialize TCP interface to AM4100.
• initInterfaces - Initialize interfaces to TMSi and AM4100, plus logging.
• initTMSi - Create UDP client to control SAGA state machine running on some host device over IPv4 + UDP.

Data Loaders

• loadData - Load all data associated with a single sweep.
• loadMultiData - Load multiple sweeps into single sweep table.
• loadSweepSpreadsheet - Load spreadsheet for sweeps based on sweep folder and raw data root folder.

Plotting Functions

• plotRecruitment - Plot recruitment summary figure.
• plotSagaRecruitmentRaw - Plot recruitment for individual SAGA channel data.

Raspberry Pi Stim Channel Switcher

Code that was run on the Raspberry Pi v4b that managed stimulation switching is saved in the following gist.