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@PytorchConnectomics

Pytorch Connectomics

Open Source Toolbox for Brain Microscopy Image Segmentation

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  1. pytorch_connectomics pytorch_connectomics Public

    PyTorch Connectomics: segmentation toolbox for EM connectomics

    Python 191 84

  2. em_util em_util Public

    toolbox utility functions

    Python 10 4

  3. SynAnno SynAnno Public

    A tool for proofreading and refining synaptic polarity annotations in electron microscopy volumes.

    Jupyter Notebook 10 1

  4. AxonEM-challenge AxonEM-challenge Public

    utility code for AxonEM challenge

    Python 8 1

  5. MitoEM-challenge MitoEM-challenge Public

    starter code for mitoEM ISBI2021 Challenge

    Jupyter Notebook 7

  6. VesiclePy VesiclePy Public

    HTML 6 2

Repositories

Showing 10 of 28 repositories
  • pytorch_connectomics Public

    PyTorch Connectomics: segmentation toolbox for EM connectomics

    PytorchConnectomics/pytorch_connectomics’s past year of commit activity
    Python 191 MIT 84 0 0 Updated Mar 20, 2026
  • pytc-client Public
    PytorchConnectomics/pytc-client’s past year of commit activity
    JavaScript 0 5 24 2 Updated Mar 20, 2026
  • waterz Public Forked from funkey/waterz

    Simple watershed and agglomeration library for affinity graphs.

    PytorchConnectomics/waterz’s past year of commit activity
    C++ 0 28 0 0 Updated Mar 19, 2026
  • MedNeXt Public Forked from MIC-DKFZ/MedNeXt

    [MICCAI 2023] MedNeXt is a fully ConvNeXt architecture for 3D medical image segmentation.

    PytorchConnectomics/MedNeXt’s past year of commit activity
    Python 0 Apache-2.0 60 0 0 Updated Mar 19, 2026
  • abiss Public Forked from seung-lab/abiss

    Affinity based image segmentation system

    PytorchConnectomics/abiss’s past year of commit activity
    C++ 0 GPL-3.0 4 0 0 Updated Mar 16, 2026
  • em_util Public

    toolbox utility functions

    PytorchConnectomics/em_util’s past year of commit activity
    Python 10 MIT 4 0 0 Updated Mar 9, 2026
  • em_erl Public

    Evaluation script for expected run length (ERL)

    PytorchConnectomics/em_erl’s past year of commit activity
    Python 2 MIT 1 1 0 Updated Mar 7, 2026
  • fiberpipeline Public
    PytorchConnectomics/fiberpipeline’s past year of commit activity
    Python 0 1 0 0 Updated Jan 22, 2026
  • SynAnno Public

    A tool for proofreading and refining synaptic polarity annotations in electron microscopy volumes.

    PytorchConnectomics/SynAnno’s past year of commit activity
    Jupyter Notebook 10 MIT 1 3 1 Updated Oct 13, 2025
  • MitoEM2.0 Public
    PytorchConnectomics/MitoEM2.0’s past year of commit activity
    0 0 0 0 Updated Aug 21, 2025
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