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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 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 210 81

  2. CEP CEP Public

    Computational Endoscopy Platform (advanced deep learning toolset for analyzing endoscopy videos) [MICCAI'25, MICCAI'22, MICCAI'21, ISBI'21, CVPR'20]

    Python 80 11

  3. Physics-ArX 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 68 16

  4. DoseRTX DoseRTX Public

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

    Python 47 9

  5. ImPartial ImPartial Public

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

    Jupyter Notebook 39 3

  6. smprofiler smprofiler Public

    Spatial Multiomics Profiler for Spatial Characterization of Tissue Microenvironment (https://smprofiler.io)

    Python 22 2

Repositories

Showing 10 of 12 repositories
  • smprofiler Public

    Spatial Multiomics Profiler for Spatial Characterization of Tissue Microenvironment (https://smprofiler.io)

    nadeemlab/smprofiler’s past year of commit activity
    Python 22 2 7 0 Updated Sep 11, 2025
  • ImPartial Public

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

    nadeemlab/ImPartial’s past year of commit activity
    Jupyter Notebook 39 3 0 0 Updated Aug 31, 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]

    nadeemlab/DeepLIIF’s past year of commit activity
    Python 210 80 0 0 Updated Aug 29, 2025
  • adi-semantic-highlights Public

    VSCode extension to show tooltips and completions for definitions and fields of a relational database schema/ontology.

    nadeemlab/adi-semantic-highlights’s past year of commit activity
    TypeScript 0 0 0 0 Updated Aug 15, 2025
  • CEP Public

    Computational Endoscopy Platform (advanced deep learning toolset for analyzing endoscopy videos) [MICCAI'25, MICCAI'22, MICCAI'21, ISBI'21, CVPR'20]

    nadeemlab/CEP’s past year of commit activity
    Python 80 11 0 0 Updated Jun 29, 2025
  • DoseRTX Public

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

    nadeemlab/DoseRTX’s past year of commit activity
    Python 47 9 0 1 Updated Jun 19, 2025
  • SeqX2Y Public

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

    nadeemlab/SeqX2Y’s past year of commit activity
    Python 19 7 0 0 Updated Apr 8, 2024
  • tmi2022 Public Forked from vkola-lab/tmi2022

    A graph-transformer for whole slide image classification

    nadeemlab/tmi2022’s past year of commit activity
    Python 0 MIT 37 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.

    nadeemlab/cg-gnn’s past year of commit activity
    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]

    nadeemlab/Physics-ArX’s past year of commit activity
    Python 68 16 0 0 Updated May 10, 2023
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