Ephys-Analyses

Toolbox for multielectrode electrophysiology analysis (LFP and MUA) designed for experiments comparing baseline vs CNO conditions in control vs experimental (hM3Dq + CNO) animals. The goal is to quantify how chemogenetic activation modulates connectivity dynamics across brain areas using time-, frequency-, and spike-based measures. Used in Sastre et al., 2026, Bertelsen et al., 2023

Supported analyses:

LFP

• Spectrum: spectral decomposition of signal. Supported statistics: band power, modulation of band power cno-baseline, modulation frequency resolved (as a function of frequency)
• Coherence: multielecrode coherence between areas. Supported statistics: coherency across bands, modulation of coherency cno-baseline in bands and frequency resolved.
• Phase Locking Value: phase coherence between areas
• Granger Causality
• Slope of power spectrum
• Band Limited Power analysis (modulation of power spectrum in different bands)

MUA

• Spiking rate
• Interspike interval (ISI) analysis of intervals between spikes
• Phase Locking Value of spiking

Folder structure

Ephys-Analyses/  
├── Auxiliary/        % auxiliary utilities (I/O, filtering, helpers)  
├── Functions/        % core analysis functions  
└── Scripts/          % orchestration scripts  
  |── main_analyses.m      % run analyses for each subject  
  └── main_statistics.m    % compute group-level statistics  

Workflow

Step 1 — Prepare data

Store raw data for each subject in its folder.

Fill the experimental table with metadata.

Step 2 — Run per-subject analyses run('Scripts/main_analyses.m')

This creates a structured .mat file per subject, containing:

LFP metrics (PSD, coherence, PLV, BLP, slope)

MUA metrics (rate, ISI, spike–LFP locking)

Metadata (parameters used, channel lists)

Step 3 — Group statistics run('Scripts/main_statistics.m')

The script compare CNO and baseline epochs, in ctrl vs exp groups. Statistics include:

band-limited analyses

frequency resolved analyses with cluster based methods

Figures

Figures 1

1A

Compatibility with Bertelsen et al., 2023

Script in Bertelsen_etal were used to chunk LFP data for the analyses in Bertelsen et al., 2023.

Firing rates were obtained as the ouput of MUA analysis run with main/ephys_analysis.m.