AIND pipeline for processing extracellular electrophysiology data

ATHENA (Automatically Tracking Hands Expertly with No Annotations) is a Python-based toolbox designed to process multi-camera video recordings, extract 2D and 3D body and hand landmarks using Media…

A set of ready to use scientific skills for Claude

A curated list of awesome Neuropixels resources.

Code for fitting neural spike trains with nonparametric hidden Markov and semi-Markov models built upon mattjj's PyHSMM framework.

Notes on Scientific Computing for Biomechanics and Motor Control

Code for Yuan, et al. 'Multi-Day Neuron Tracking in High Density Electrophysiology Recordings using EMD'

An implementation of Deep Canonical Correlation Analysis (DCCA or Deep CCA) with pytorch.

Learnable latent embeddings for joint behavioral and neural analysis - Official implementation of CEBRA

Code for "Feedforward and feedback interactions between visual cortical areas use different population activity patterns", Semedo et al. (Nature Communications, 2022)

A dimensionality reduction framework for characterizing the multi-dimensional, concurrent flow of signals across multiple neuronal populations

A dimensionality reduction framework for disentangling the flow of signals between populations of neurons

Decomposed Linear Dynamical Systems (dLDS) for learning the latent components of neural dynamics

Code for "Cortical areas interact through a communication subspace", Semedo et al. (Neuron, 2019)

AnnotationTool to create multi-view annotations for the JARVIS 3D Markerless Pose Estimation Toolbox

Ephys toolbox to match single units (electrophysiology) either within the same day (over splits) or across two days

Machine learning for multivariate data through the Riemannian geometry of positive definite matrices in Python

MuJoCo is a physics engine for detailed, efficient rigid body simulations with contacts. mujoco-py allows using MuJoCo from Python 3.

Multi-Joint dynamics with Contact. A general purpose physics simulator.

Modules for processing extracellular electrophysiology data from Neuropixels probes

Fast spike sorting with drift correction

MyoSuite is a collection of environments/tasks to be solved by musculoskeletal models simulated with the MuJoCo physics engine and wrapped in the OpenAI gym API.

Define, train, and perform optimization on differentiable models of neural fiber dynamics.

A PyTorch implementation of Dynamic Graph CNN for Learning on Point Clouds (DGCNN)

PointNet and PointNet++ implemented by pytorch (pure python) and on ModelNet, ShapeNet and S3DIS.

pytorch implementation for "PointNet: Deep Learning on Point Sets for 3D Classification and Segmentation" https://arxiv.org/abs/1612.00593