A framework for benchmarking pose estimation and point tracking methods on animal behaviour videos.

Reproducible figures for research outputs related to movement.

An interactive framework for atlas-based visualization of quantitative histological traits. https://anna-teruel.github.io/geobrain-website/index.html

VERSO (Verso allows Easy Registration of SectiOns)

BrainBox is a web application that lets you view, annotate and segment 3D brain imaging data in real time, collaboratively.

a place to work on a specification for skeletons

A repository to organize data models and code for creating a pilot common connectivity matrix for BRAIN CONNECTS

Reconstructing True 3D Spatial Omics at Single-Cell Resolution

Use Claude Code, Codex, Pi, and OpenCode (and 6 other harnesses) for free (1.3B+ free tokens) from your terminal, app, IDE, or phone, and now from the browser with native browser sessions (multi-ha…

Vim-fork focused on extensibility and usability

[Nature Communications] Adaptive Riemannian Optimization for Multi-Scale Diffeomorphic Registration

Interactive 3D Allen CCF mouse brain atlas viewer with DANDI dataset integration

Official implementation of MuViT (CVPR 2026), a ViT-based architecture for multi-scale modelling of gigapixel microscopy images.

Python package for analysis and visualization of functional ultrasound imaging data.

An API for accessing atlas registered 3D volumetric data.

WholeOrganAtlas

Python package for the openMINDS metadata models. The package contains all openMINDS schemas as Python classes in addition to schema base classes and utility methods.

Data and code supporting Hansen et al., 2026, PLOS Biology "Synapse types are spatially associated with regional hemodynamics in the mouse brain"

Derotate images acquired via multiphoton calcium imaging

Automated and reproducible analysis of multiphoton imaging datasets

A tile server for WSI stored in S3-compatible object storage.

SAM-Med3D: An Efficient General-purpose Promptable Segmentation Model for 3D Volumetric Medical Image

A fluid, morphing interface to your Linux desktop

A fluid, morphing shell for your Linux desktop

Omnipose: a high-precision solution for morphology-independent cell segmentation