A fork to optimize interval matching in the bootstrap case; also extends to data with arbitrary (precomputed) distance metrics.

OpenScope databook: a collaborative, versioned, data-centric collection of foundational analyses for reproducible systems neuroscience 🐁🧠🔬🖥️📈

Research. Shared.

Real-time analysis of intracranial neurophysiology recordings.

A napari plugin for direct 3D cell segmentation -- taking you through training, inference, and review of masks

[Cell 2024]: Code for Task-driven neural network models predict neural dynamics of proprioception by Marin Vargas* and Bisi* et al.

[CVPR 2024] HOISDF: Constraining 3D Hand-Object Pose Estimation with Global Signed Distance Fields

A python package for modelling locomotion in complex environments and spatially/velocity selective cell activity.

Next-gen fast plotting library running on WGPU using the pygfx rendering engine

A curated collection of resources and research related to the geometry of representations in the brain, deep networks, and beyond

Simple vispy-based frame-by-frame behavior annotation GUI. Also can display DeepLabCut poses within videos during annotation.

[ICCV 2023] Tracking Anything with Decoupled Video Segmentation

SuperAnimal models supporting data

[ICCV 2023] "Rethinking pose estimation in crowds: overcoming the detection information-bottleneck and ambiguity"

[NeurIPS 2023] We turn natural language descriptions of behaviors into machine-executable code

Coding course materials for Brain-like computation and intelligence

Dimensionality Reduction with Eilenberg-MacLane Coordinates

DLC2Action is an action segmentation package that makes running and tracking of machine learning experiments easy.

Papers from the intersection of deep learning and neuroscience

[NeurIPS 2022] DMAP: a Distributed Morphological Attention Policy for Learning to Locomote with a Changing Body

🐍 Example Python project using best practices 🥇

Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

Official implementation of DeepLabCut: Markerless pose estimation of user-defined features with deep learning for all animals incl. humans

AI Toolkit for Healthcare Imaging