How to compute the features for a probe

This guide shows you how to compute the per-channel electrophysiology features that the Channel Prediction models run on.

Prerequisites

• The ephysatlas extra installed (see How to install the optional extras).

• The raw SpikeGLX AP and LF files of the probe (.bin or .cbin), each with its .meta file.

Steps

1. Compute the features with ibleatools, following its guide How to compute features from SpikeGLX AP/LF files. It gives a table of features with one row per channel.

2. Save the table as a parquet file, for example df.to_parquet('/path/to/probe00/features.pqt'). Parquet keeps the table’s attributes, including the features’ vintage (features_version), which the GUI checks against the model.

3. Repeat for every probe you want to run the models on.

4. Point the GUI at the file (see How to give each shank its features file).

Note

The published models need all four feature families. The waveforms family needs the full install of ibleatools (ibleatools[full]). The feature computation also assumes a single-shank probe: on a multi-shank recording some features can fail or mix the shanks.

The features must be of the vintage the model was trained on. If they are not, see How to fix a feature vintage mismatch.

Related

• Input datasets: the features file