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@DIAGNijmegen

Diagnostic Image Analysis Group

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  1. rse-grand-challenge rse-grand-challenge Public

    A platform for end-to-end development of machine learning solutions in biomedical imaging

    Python 185 60

  2. neural-odes-segmentation neural-odes-segmentation Public

    Neural Ordinary Differential Equations for Semantic Segmentation of Individual Colon Glands

    Python 113 28

  3. pathology-whole-slide-data pathology-whole-slide-data Public

    A package for working with whole-slide data including a fast batch iterator that can be used to train deep learning models.

    Python 111 31

  4. StreamingCNN StreamingCNN Public

    To train deep convolutional neural networks, the input data and the activations need to be kept in memory. Given the limited memory available in current GPUs, this limits the maximum dimensions of …

    Jupyter Notebook 101 26

  5. pathology-streaming-pipeline pathology-streaming-pipeline Public

    Use streaming to train whole-slides images with single image-level labels, by reducing GPU memory requirements with 99%.

    Python 78 12

  6. picai_labels picai_labels Public

    Annotations for the PI-CAI Challenge: Public Training and Development Dataset

    71 30

Repositories

Showing 10 of 233 repositories
  • lightstream Public

    A Pytorch Lightning implementation for streaming convolutional networks

    DIAGNijmegen/lightstream’s past year of commit activity
    Jupyter Notebook 3 Apache-2.0 0 7 1 Updated Feb 26, 2026
  • pathology-streamingclam Public

    Lightstream implementation of the StreamingCLAM model

    DIAGNijmegen/pathology-streamingclam’s past year of commit activity
    Python 7 GPL-3.0 4 2 0 Updated Feb 26, 2026
  • rse-grand-challenge Public

    A platform for end-to-end development of machine learning solutions in biomedical imaging

    DIAGNijmegen/rse-grand-challenge’s past year of commit activity
    Python 185 Apache-2.0 60 41 4 Updated Feb 26, 2026
  • website-content Public

    This repository stores all the content for the diag websites.

    DIAGNijmegen/website-content’s past year of commit activity
    TeX 6 MIT 78 15 16 Updated Feb 26, 2026
  • rse-sagemaker-shim Public

    Adapts algorithms that implement the Grand Challenge inference API for running in SageMaker

    DIAGNijmegen/rse-sagemaker-shim’s past year of commit activity
    Python 1 Apache-2.0 0 1 0 Updated Feb 26, 2026
  • nnUNet-for-pathology Public Forked from MIC-DKFZ/nnUNet

    Adapted nnUNet framework with additional features to suit the requirements for pathology applications

    DIAGNijmegen/nnUNet-for-pathology’s past year of commit activity
    Python 23 Apache-2.0 2,317 0 0 Updated Feb 25, 2026
  • unicorn_eval Public
    DIAGNijmegen/unicorn_eval’s past year of commit activity
    Python 6 Apache-2.0 5 1 1 Updated Feb 24, 2026
  • llm_extractinator Public

    This project enables the efficient extraction of structured data from unstructured text using large language models (LLMs). It provides a flexible configuration system and supports a variety of tasks.

    DIAGNijmegen/llm_extractinator’s past year of commit activity
    Python 8 Apache-2.0 0 0 0 Updated Feb 24, 2026
  • rse-pyswot Public

    Python implementation of JetBrains/swot

    DIAGNijmegen/rse-pyswot’s past year of commit activity
    Python 1 Apache-2.0 1 0 0 Updated Feb 24, 2026
  • pathology-whole-slide-packer Public

    extracts tissue sections from one or multiple whole slide images and combines them into a single new slide removing excess white space

    DIAGNijmegen/pathology-whole-slide-packer’s past year of commit activity
    Python 6 Apache-2.0 3 0 0 Updated Feb 22, 2026

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