A WebGPU-native out-of-core rendering system for large virtualized volumetric data.

Chromium running inside your terminal

Fiji plugin to use Cellpose with Appose

Helper scripts for building Icy v3

A recast of cell segmentation models built on the Burn deep learning framework.

Image-processing software for cryo-electron microscopy

Generates synthetic datasets for Cryo-Electron Tomography

Rust extension module for FIJI-like colormapping and channel blending

Modern Bio-Formats wrapper with clean lazy Python API

MS Word template for styling a manuscript for a bioRxiv submission

ImageJ convenience layer for N5

BigDataViewer-based tool for visualizing multichannel multiscale N5 datasets.

Mesh triangle reduction using quadrics

Skeletonize densely labeled 3D image segmentations with TEASAR. (Medial Axis Transform)

Converts a raw digitized polygon mesh to a clean mesh where all the occurrences of a specific set of "defects" are corrected. Holes, self-intersections, degenerate and non-manifold elements are all…

🐹 Deep clean and optimize your Mac.

Analysis of TrackMate XML outputs in R

ShapeEmbedLite: a lightweight self-supervised representation learning model for 2D shape analysis

Fix common issues in Mach-O binaries for notarization

Scientific Dataset Quality Control and Data Exploration Tool

nnInteractive is a framework for 3D interactive segmentation, supporting intuitive prompts like points, scribbles, bounding boxes, and lasso. Trained on 120+ diverse 3D datasets, it sets a new stan…

7 sessions workshop about bioimage analysis

Napari plugin with tools for manual correction of tracking data.

QuPath extension to work with images through OMERO's APIs

A python algorithm for tracking cells in 3D deforming organs