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    • SCEMILA

      Public
      Single cell based explainable multiple instance learning algorithm (SCEMILA) for genetic acute myeloid leukemia subtype classification.
      Python
      MIT License
      1900Updated Mar 24, 2026Mar 24, 2026
    • DinoBloom

      Public
      Blood Cell Foundation Model based on DINOv2
      Python
      Apache License 2.0
      116930Updated Jan 29, 2026Jan 29, 2026
    • Code accompanying "Prospective identification of hematopoietic lineage choice by deep learning", Nature methods 2017, DOI:10.1038/nmeth.4182
      MATLAB
      62101Updated Dec 18, 2025Dec 18, 2025
    • cAItomorph: Hematological Diagnostics from Peripheral Blood Cytomorphology
      Python
      MIT License
      0500Updated Oct 17, 2025Oct 17, 2025
    • Python data generation tool with unobserved confounding as testbed for causal discovery and causal abstraction
      Python
      0381Updated Oct 16, 2025Oct 16, 2025
    • aNCA

      Public
      Python
      0300Updated Oct 6, 2025Oct 6, 2025
    • NCA-WSS

      Public
      Python
      0100Updated Sep 23, 2025Sep 23, 2025
    • HistoGPT

      Public
      A vision language model for gigapixel whole slide images in histopathology
      Jupyter Notebook
      Apache License 2.0
      209620Updated Sep 4, 2025Sep 4, 2025
    • RedTell

      Public
      Python
      51010Updated Jul 24, 2025Jul 24, 2025
    • Jupyter Notebook
      MIT License
      0100Updated May 12, 2025May 12, 2025
    • Evaluation of large vision language models on cytomorphology tasks
      0000Updated Apr 23, 2025Apr 23, 2025
    • BatchDetect: a python package for detect systematic batch effects in datasets
      Python
      MIT License
      0300Updated Mar 31, 2025Mar 31, 2025
    • hNCA

      Public
      Python
      0100Updated Mar 22, 2025Mar 22, 2025
    • DomainLab

      Public
      modular domain generalization: https://pypi.org/project/domainlab/
      Python
      MIT License
      3462118Updated Mar 18, 2025Mar 18, 2025
    • BaSiC

      Public
      A BaSiC Tool for Background and Shading Correction of Optical Microscopy Images
      MATLAB
      1767100Updated Mar 12, 2025Mar 12, 2025
    • ContMIL

      Public
      Python
      0000Updated Feb 10, 2025Feb 10, 2025
    • MLL23

      Public
      Jupyter Notebook
      0110Updated Jan 10, 2025Jan 10, 2025
    • WBC-NCA

      Public
      Jupyter Notebook
      1410Updated Aug 20, 2024Aug 20, 2024
    • MILPLE

      Public
      Python
      0100Updated Apr 8, 2024Apr 8, 2024
    • Jupyter Notebook
      MIT License
      1100Updated Feb 20, 2024Feb 20, 2024
    • pxpermute

      Public
      Jupyter Notebook
      MIT License
      0000Updated Jan 12, 2024Jan 12, 2024
    • SHAPR: Code for "Capturing Shape Information with Multi-Scale Topological Loss Terms for 3D Reconstruction"
      Python
      BSD 3-Clause "New" or "Revised" License
      74100Updated Oct 28, 2023Oct 28, 2023
    • Jupyter Notebook
      MIT License
      1000Updated Oct 11, 2023Oct 11, 2023
    • scifAI

      Public
      scifAI: An explainable AI python framework for the analysis of multi-channel imaging data
      Python
      MIT License
      0900Updated Oct 11, 2023Oct 11, 2023
    • AE-CFE

      Public
      Python
      4420Updated Jul 10, 2023Jul 10, 2023
    • AE-CFE-1

      Public
      Python
      4000Updated Jul 4, 2023Jul 4, 2023
    • DISPR

      Public
      A Diffusion Model Predicts 3D Shapes from 2D Microscopy Images
      Python
      Apache License 2.0
      63940Updated May 31, 2023May 31, 2023
    • SHAPR

      Public
      SHAPR - An AI approach to predict 3D cell shapes from 2D microscopic images
      Python
      BSD 3-Clause "New" or "Revised" License
      71500Updated May 31, 2023May 31, 2023
    • Preprint: https://www.biorxiv.org/content/10.1101/2022.08.30.505835v1.full.pdf
      Python
      MIT License
      1100Updated May 31, 2023May 31, 2023
    • InstantDL

      Public
      InstantDL: An easy and convenient deep learning pipeline for image segmentation and classification
      Python
      MIT License
      84522Updated Mar 24, 2023Mar 24, 2023
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