In this demo, you will use SpikeInterface to analyze a dataset recordinded with cambridge neurotec probe.

The objective of this demo is to show all the functionalities of SpikeInterface on a real-world example.

This dataset is nicely provided by Eduarda Centeno, Arthur Leblois and Aude Retailleau from IMN lab in Bordeaux. It is a recording from a zebra finch for testing the probe ASSY-236-H5 from cambridge neurotech. The recording system is the open-ephys usb3 board. This file is only for testing or teaching purposes.

1. Preparation
2. Loading the data and probe information
3. Preprocessing
4. Saving and loading SpikeInterface objects
5. Spike sorting
6. Extracting waveforms
7. Postprocessing
8. Validation and curation
9. Viewers
10. Spike sorting comparison

We recommend creating a new si_env conda environment using:

conda env create -f environment.yml

Alternatively, you can install the requirements you can use the requirements.txt in this directory by running the command:

pip install -r requirements.txt

In addition, it is recommended to install docker-desktop, as this will enable us to run multiple spike sorters without installation!