Animal electrophysiology

Mouse VR

Harvey Lab miniaturized mouse VR rig for head-fixed virtual navigation and decision-making tasks. The VR setup is comprised of several independent assemblies: The screen assembly: a laser projector projects onto a parabolic screen surrounding the mouse.

DataJoint

DataJoint is an open-source library for managing and sharing scientific data pipelines in Python and Matlab. DataJoint allows creating and sharing computational data pipelines, which are defined as databases and analysis code for executing steps of activities for data collection and analysis.

Neurodata Without Borders

Neurodata Without Borders is a data standard for neurophysiology, providing neuroscientists with a common standard to share, archive, use, and build analysis tools for neurophysiology data. NWB is designed to store a variety of neurophysiology data, including data from intracellular and extracellular electrophysiology experiments, data from optical physiology experiments, and tracking and stimulus data.

SpikeInterface

SpikeInterface is a unified Python framework for spike sorting. With its high-level API, it is designed to be accessible and easy to use, allowing users to build full analysis pipelines for spike sorting (reading-writing (IO) / preprocessing / spike sorting / postprocessing / validation / curation / comparison / visualization) with a few lines of code.

Heuristic Spike Sorting Tuner (HSST), a framework to determine optimal parameter selection for a generic spike sorting algorithm

Extracellular microelectrodes frequently record neural activity from more than one neuron in the vicinity of the electrode. The process of labeling each recorded spike waveform with the identity of its source neuron is called spike sorting and is often approached from an abstracted statistical perspective.

Craniobot

The Craniobot is a cranial microsurgery platform that combines automated skull surface profiling with a computer numerical controlled (CNC) milling machine to perform a variety of cranial microsurgical procedures in mice.