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    117 repositories

    • nnUNet

      Public
      segmentation
      Python
      •
      Apache License 2.0
      •2.3k•8k•331•32•Updated Feb 4, 2026Feb 4, 2026

    • napari-mlarray

      Public
      A reader/writer Napari plugin for MLArray images
      Python
      •
      MIT License
      •0•1•0•1•Updated Feb 3, 2026Feb 3, 2026

    • LesionLocator

      Public
      LesionLocator is a framework for zero-shot lesion segmentation and longitudinal tumor tracking in 3D full-body imaging.
      trackingtumorsegmentation3dlesion
      Python
      •
      GNU General Public License v3.0
      •9•89•3•0•Updated Feb 3, 2026Feb 3, 2026

    • mlarray

      Public
      Array format specialized for Machine Learning with Blosc2 backend and standardized metadata.
      Python
      •
      MIT License
      •0•9•0•0•Updated Feb 2, 2026Feb 2, 2026

    • dynamic-network-architectures

      Public
      Python
      •
      Apache License 2.0
      •58•148•5•4•Updated Feb 2, 2026Feb 2, 2026

    • batchgeneratorsv2

      Public
      Python
      •
      Apache License 2.0
      •16•25•0•5•Updated Jan 26, 2026Jan 26, 2026

    • Longitudinal4DMed

      Public
      Python
      •0•6•0•0•Updated Jan 22, 2026Jan 22, 2026

    • nnActive

      Public
      Python
      •
      Apache License 2.0
      •0•15•1•0•Updated Jan 20, 2026Jan 20, 2026

    • Temporal-Flow-Matching

      Public
      Python
      •0•10•0•0•Updated Jan 16, 2026Jan 16, 2026

    • ToothSeg

      Public
      Python
      •1•26•1•0•Updated Jan 7, 2026Jan 7, 2026

    • napari-voxtell

      Public
      Python
      •
      Apache License 2.0
      •0•12•0•0•Updated Jan 7, 2026Jan 7, 2026

    • VoxTell

      Public
      Free-Text Promptable Universal 3D Medical Image Segmentation
      Python
      •
      Apache License 2.0
      •7•106•4•0•Updated Dec 27, 2025Dec 27, 2025

    • napari-data-inspection

      Public
      Data Inspection Plugin, designed to streamline file navigation and enhance the efficiency of data inspection.
      Python
      •
      Apache License 2.0
      •1•13•0•0•Updated Dec 22, 2025Dec 22, 2025

    • ViData

      Public
      A unified Python toolkit for managing, processing, and analyzing 2D and 3D vision data — from raw files to task-aware analytics. Designed to streamline computer…
      Python
      •
      Apache License 2.0
      •0•3•0•0•Updated Dec 22, 2025Dec 22, 2025

    • napari-stream

      Public
      Plugin to send and receive multi-dimensional image data for visualization in Napari over the network.
      Python
      •
      MIT License
      •0•1•0•0•Updated Dec 19, 2025Dec 19, 2025

    • combinedmodalityviewer

      Public
      0•0•0•0•Updated Dec 17, 2025Dec 17, 2025

    • MedVol

      Public
      Python
      •
      Apache License 2.0
      •0•16•0•0•Updated Dec 12, 2025Dec 12, 2025

    • Skeleton-Recall

      Public
      Skeleton Recall Loss for Connectivity Conserving and Resource Efficient Segmentation of Thin Tubular Structures
      Python
      •
      Apache License 2.0
      •11•129•6•1•Updated Dec 8, 2025Dec 8, 2025

    • nnunet-eucaim-docker

      Public
      This repository provides Docker images for running nnUNet inference in a reproducible and containerized environment, tailored for the EUCAIM project.
      Dockerfile
      •
      Apache License 2.0
      •1•0•0•0•Updated Dec 8, 2025Dec 8, 2025

    • diabetes-xai

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Dec 4, 2025Dec 4, 2025

    • confly

      Public
      Python
      •
      Apache License 2.0
      •0•1•0•0•Updated Dec 3, 2025Dec 3, 2025

    • ScribbleBench

      Public
      [MICCAI 2025] Revisiting 3D Medical Scribble Supervision: Benchmarking Beyond Cardiac Segmentation
      Python
      •
      Apache License 2.0
      •2•5•1•0•Updated Dec 3, 2025Dec 3, 2025

    • napari-blosc2

      Public
      Python
      •
      Apache License 2.0
      •0•2•0•0•Updated Dec 3, 2025Dec 3, 2025

    • tqdmp

      Public
      Multiprocessing with tqdm progressbars!
      Python
      •
      MIT License
      •0•2•1•0•Updated Dec 3, 2025Dec 3, 2025

    • nnInteractive

      Public
      nnInteractive is a framework for 3D interactive segmentation, supporting intuitive prompts like points, scribbles, bounding boxes, and lasso. Trained on 120+ di…
      Python
      •
      Apache License 2.0
      •40•354•18•1•Updated Nov 28, 2025Nov 28, 2025

    • segmentyourpathoslidesonalaptop

      Public
      Python
      •
      Other
      •3•7•0•0•Updated Nov 26, 2025Nov 26, 2025

    • patchly

      Public
      A grid sampler for larger-than-memory N-dimensional images
      Python
      •
      Apache License 2.0
      •2•26•0•0•Updated Nov 11, 2025Nov 11, 2025

    • study-monitoring-kaapana

      Public
      Python
      •
      GNU Affero General Public License v3.0
      •0•0•0•0•Updated Nov 10, 2025Nov 10, 2025

    • computing_membrane_property_extraction

      Public
      Python
      •0•0•0•0•Updated Nov 10, 2025Nov 10, 2025

    • ContrastiveVirtualStaining

      Public
      Python
      •
      Other
      •0•1•0•0•Updated Oct 31, 2025Oct 31, 2025