Annotate microscopy images.Fast, local, precise.
Micro-Seg is a native desktop tool for annotating and analyzing 2D microscopy images, with AI-assisted segmentation that runs entirely on your machine. Built in Rust.
Windows · Linux · No install required
Built for real segmentation work
Complete annotation toolkit
Polygons, polylines, rectangles, ellipses, points and masks — with vertex editing, rotation, grouping, slicing and merging. Everything a segmentation workflow needs.
AI-assisted segmentation
Run ONNX models locally to pre-segment phases and structures, then refine by hand. Your images never leave your machine.
GPU-accelerated interface
Built on GPUI, the rendering engine behind the Zed editor. Panning, zooming and editing stay smooth with hundreds of objects on screen.
Extensible with WASM plugins
Add analysis tasks as sandboxed WebAssembly plugins with a Rust SDK — no need to fork or rebuild the app.
Cross-platform, portable
Native builds for Windows and Linux, shipped as portable archives. Unzip and run — no installer, no admin rights.
Open project format
A documented, versioned project format plus CSV and XML export, so your annotations stay usable in the rest of your pipeline.