SpikeForest

⚠️ This project is under construction.

Spike sorting benchmarking system. See our eLife paper.

This Python project allows you to download a subset of the SpikeForest recordings, the associated ground truth sortings, and the outputs of the spike sorting runs, and load these into SpikeInterface recording and sorting extractors.

Note: only a subset of the SpikeForest recordings are available at this time.

All data are available on the kachery-cloud network.

Setup

It is recommended that you use a conda environment with Python >= 3.8 and numpy

pip install --upgrade spikeforest

Configure your kachery-cloud client

kachery-cloud-init
# follow the instructions to associate your client with your Google user name on kachery-cloud

Getting started

• List all recordings with ground truth: examples/list_all_recordings.py
• Load a recording and sorting extractors for a recording with ground truth: examples/load_extractors_for_recording.py
• List all sorting outputs: examples/list_all_sorting_outputs.py
• Load sorting extractor for a sorting output: examples/load_extractor_for_sorting_output.py