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@nadeemlab

Nadeem Lab @ Memorial Sloan Kettering Cancer Center

Integrative Biomedical Data Analysis Lab (macro: radiology/surgery + meso: pathology + micro: molecular)

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  1. DeepLIIF Public

    Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, CVPR'22, MICCAI'23, Histopathology'23, MICCAI'24]

    Python 188 72

  2. CEP Public

    Computational Endoscopy Platform (advanced deep learning toolset for analyzing endoscopy videos) [MICCAI'22, MICCAI'21, ISBI'21, CVPR'20]

    Python 72 11

  3. Physics-ArX Public

    Physics-based data augmentation library for quantifying CT and CBCT images in radiotherapy [PMB'23, PMB'21, Medical Physics'21, AAPM'21]

    Python 63 16

  4. DoseRTX Public

    Domain knowledge driven 3D radiation dose prediction [PMB'22]

    Python 43 9

  5. ImPartial Public

    Interactive deep learning whole-cell segmentation and thresholding using partial annotations

    Jupyter Notebook 36 3

  6. SPT Public

    Spatial profiling toolbox for spatial characterization of tumor immune microenvironment in multiplex images

    Python 22 2

Repositories

Showing 10 of 11 repositories
  • SPT Public

    Spatial profiling toolbox for spatial characterization of tumor immune microenvironment in multiplex images

    Python 22 2 9 1 Updated Mar 25, 2025
  • ImPartial Public

    Interactive deep learning whole-cell segmentation and thresholding using partial annotations

    Jupyter Notebook 36 3 0 0 Updated Mar 25, 2025
  • DoseRTX Public

    Domain knowledge driven 3D radiation dose prediction [PMB'22]

    Python 43 9 0 0 Updated Mar 24, 2025
  • DeepLIIF Public

    Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, CVPR'22, MICCAI'23, Histopathology'23, MICCAI'24]

    Python 188 72 1 1 Updated Mar 20, 2025
  • SeqX2Y Public

    Sequence-to-sequence image and contour prediction library for longitudinal datasets [PMB'23]

    Python 18 7 0 0 Updated Apr 8, 2024
  • tmi2022 Public Forked from vkola-lab/tmi2022

    A graph-transformer for whole slide image classification

    Python 0 MIT 36 0 0 Updated Jan 25, 2024
  • cg-gnn Public

    Create cell graphs from pathology slide data and train a graph neural network to predict patient outcomes for SPT.

    Python 4 AGPL-3.0 0 0 0 Updated Jan 18, 2024
  • Physics-ArX Public

    Physics-based data augmentation library for quantifying CT and CBCT images in radiotherapy [PMB'23, PMB'21, Medical Physics'21, AAPM'21]

    Python 63 16 0 0 Updated May 10, 2023
  • CIR Public

    Clinically-Interpretable Radiomics [MICCAI'22, CMPB'21]

    Python 32 6 0 0 Updated Feb 9, 2023
  • CEP Public

    Computational Endoscopy Platform (advanced deep learning toolset for analyzing endoscopy videos) [MICCAI'22, MICCAI'21, ISBI'21, CVPR'20]

    Python 72 11 0 0 Updated Nov 15, 2022
View all repositories

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