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@MMV-Lab Microscopy Machine Vision Group

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    56 repositories

    • mmv_h4tracks

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•7•0•Updated Mar 27, 2026Mar 27, 2026

    • string_vessel_project

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Mar 27, 2026Mar 27, 2026

    • Topological_Regularizers

      Public
      Here you can find the development related to the paper "Geometric and Topological Regularization for Bioimage Segmentation"
      Python
      •1•0•0•0•Updated Mar 27, 2026Mar 27, 2026

    • aics-segmentation

      Public
      Part 1 of Allen Cell and Structure Segmenter: classic image segmentation workflow
      Jupyter Notebook
      •
      Other
      •15•0•0•1•Updated Mar 17, 2026Mar 17, 2026

    • meeting_scheduler

      Public
      JavaScript
      •0•0•0•0•Updated Mar 15, 2026Mar 15, 2026

    • VessQC

      Public
      Vessel Quality Check
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Mar 13, 2026Mar 13, 2026

    • mmv_im2im

      Public
      Python package for deep learning based image to image transformation
      Python
      •
      MIT License
      •2•53•24•1•Updated Mar 12, 2026Mar 12, 2026

    • gfap_segmenter

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•1•Updated Feb 1, 2026Feb 1, 2026

    • ambiom-ai-data-portal

      Public
      AI Data Portal for Biology & Microscopy, by AMBIOM group
      MIT License
      •0•0•0•0•Updated Jan 29, 2026Jan 29, 2026

    • block_jumper

      Public
      A small browser-based platformer game developed by Lukas during his student internship.
      JavaScript
      •0•0•0•0•Updated Jan 29, 2026Jan 29, 2026

    • AMBIOM-BFF-csv-repo

      Public
      This Repo contains sample csv data from already published datasets
      0•0•0•0•Updated Jan 19, 2026Jan 19, 2026

    • FCIS

      Public
      Four Color Theorem for Cell Instance Segmentation, ICML.
      Python
      •
      MIT License
      •5•0•0•0•Updated Dec 21, 2025Dec 21, 2025

    • ambiom-bff-portals

      Public
      Repository to host scripts which enable handling metadata for BioFileFinder.
      Python
      •0•0•0•0•Updated Dec 3, 2025Dec 3, 2025

    • biomedseg-efficiency

      Public
      Code and experiments for "Data Efficiency and Transfer Robustness in Biomedical Image Segmentation: A Study of Redundancy and Forgetting with Cellpose" (IEEE BI…
      Python
      •
      MIT License
      •0•0•0•0•Updated Nov 19, 2025Nov 19, 2025

    • napari-allencell-segmenter

      Public
      A plugin that enables image segmentation provided by Allen Institute for Cell Science
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •8•0•0•0•Updated Nov 18, 2025Nov 18, 2025

    • mmv-lab.github.io

      Public
      AMBIOM group website
      HTML
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Nov 16, 2025Nov 16, 2025

    • allencell-segmenter-ml

      Public
      Napari plugin for ml segmentation
      Python
      •
      Other
      •2•0•0•0•Updated Nov 7, 2025Nov 7, 2025

    • mmv_h4cells_helper

      Public
      Python
      •
      MIT License
      •0•0•1•0•Updated Oct 28, 2025Oct 28, 2025

    • leonardo_toolset

      Public
      Fork of leonardo_toolset
      Python
      •
      MIT License
      •2•0•0•0•Updated Oct 15, 2025Oct 15, 2025

    • aics-ml-segmentation

      Public
      Python
      •
      Other
      •10•0•0•0•Updated Oct 14, 2025Oct 14, 2025

    • MMV-RegionSeg

      Public
      A Napari plugin for the segmentation of regions by flood_fill
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Oct 2, 2025Oct 2, 2025

    • RegionSeg-BoneTunnels

      Public
      A Napari plugin for the segmentation of regions by flood_fill + bone tunnel segmentation
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Oct 2, 2025Oct 2, 2025

    • manual_annotations_risk

      Public
      Python
      •0•0•0•0•Updated Sep 25, 2025Sep 25, 2025

    • mmv_AutoQC

      Public
      Python
      •2•2•0•2•Updated Sep 15, 2025Sep 15, 2025

    • AL_BioMed_img_seg

      Public
      An Active Learning Pipeline Based on Data-Centric AI for Biomedical Image Instance Segmentation
      Python
      •
      MIT License
      •0•1•0•0•Updated Aug 26, 2025Aug 26, 2025

    • vessel_analysis_3d

      Public
      Python
      •
      MIT License
      •1•1•1•0•Updated Aug 21, 2025Aug 21, 2025

    • data_portal_BFF

      Public
      0•0•0•0•Updated Aug 6, 2025Aug 6, 2025

    • LSFM_analyzer

      Public
      MIT License
      •0•0•0•0•Updated Apr 28, 2025Apr 28, 2025

    • MMV-playground

      Public
      Napari plugin for 2D microscopy segmentation
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 31, 2025Jan 31, 2025

    • 3D-Cell-Viewer

      Public
      3D volume viewer
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•1•3•Updated Dec 3, 2024Dec 3, 2024
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