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    132 repositories

    • DBT-DINO

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Dec 19, 2025Dec 19, 2025

    • CorisDB_Curation

      Public
      Repo for organizing the db scheme of our coris_db
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated Dec 17, 2025Dec 17, 2025

    • fastapi_saml

      Public
      FastAPI and SAML Integration
      Python
      •
      MIT License
      •0•0•0•0•Updated Dec 12, 2025Dec 12, 2025

    • preprocessing

      Public
      `preprocessing` is a python library and CLI tool designed for the purpose of preprocessing MRI data for Deep Learning at QTIM.
      Jupyter Notebook
      •
      MIT License
      •0•1•0•0•Updated Dec 10, 2025Dec 10, 2025

    • ga_segmentation_app

      Public
      A web-based application for annotating medical images with vertical line markers.
      Jupyter Notebook
      •0•0•0•0•Updated Dec 3, 2025Dec 3, 2025

    • federatedLearning_glaucoma_segmentation

      Public
      Federated Learning Optic Disc and Cup Segmentation Model for Glaucoma Monitoring in Color Fundus Photographs(CFPs)
      Python
      •1•3•0•0•Updated Nov 21, 2025Nov 21, 2025

    • Disentanglement

      Public
      Python
      •0•0•0•0•Updated Nov 21, 2025Nov 21, 2025

    • PAVE-Pathology

      Public
      Jupyter Notebook
      •478•0•0•0•Updated Oct 21, 2025Oct 21, 2025

    • dl-prediction-brca-tiph-ext

      Public
      Implementation of the paper "Deep Learning-based Prediction of Breast Cancer Tumor and Immune Phenotypes from Histopathology" by Tiago Gonçalves, Dagoberto Pulido-Arias, Julian Willett, Katharina V. Hoebel, Mason Cleveland, Syed Rakin Ahmed, Elizabeth Gerstner, Jayashree Kalpathy-Cramer, Jaime S. Cardoso, Christopher P. Bridge and Albert E. Kim.
      Python
      •
      MIT License
      •1•1•0•0•Updated Oct 13, 2025Oct 13, 2025

    • Chronicle

      Public
      An ordered record of events and data
      Python
      •
      Other
      •6•0•0•0•Updated Oct 7, 2025Oct 7, 2025

    • AI-for-BPD-and-PH

      Public
      Deep learning-based prediction of cardiopulmonary disease in retinal images of premature infants
      Python
      •0•0•0•0•Updated Sep 4, 2025Sep 4, 2025

    • chimera

      Public
      Predicting Bacillus Calmette-Guérin(BCG) response subtypes (BRS1, BRS2, BRS3) from H&E-stained histopathology slides of high-risk non-muscle-invasive bladder cancer (HR-NMIBC) patients.
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Aug 20, 2025Aug 20, 2025

    • cervical-cancer-ai

      Public
      Umbrella site + docs
      CSS
      •0•0•0•0•Updated Aug 7, 2025Aug 7, 2025

    • cervical-dynamics

      Public
      Spatio-temporal modelling of cervical lesion dynamics
      0•0•0•0•Updated Aug 6, 2025Aug 6, 2025

    • DeepLearn2025

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Jul 18, 2025Jul 18, 2025

    • creating_dicoms

      Public
      A repo with examples on how to make dicoms and segmentation objects from raw data.
      MIT License
      •0•0•0•0•Updated Jun 25, 2025Jun 25, 2025

    • Brain-Mets-Seg

      Public
      A repository containing code to segment brain metastases on T1 contrast enhanced MR scans.
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Jun 25, 2025Jun 25, 2025

    • coral-lab

      Public
      HTML
      •0•0•0•0•Updated Jun 19, 2025Jun 19, 2025

    • qtim-lab.github.io

      Public
      A repository for the public-facing web page of the Quantiative Tumor Imaging Lab at the Martinos Center.
      HTML
      •
      MIT License
      •3•4•0•1•Updated Jun 4, 2025Jun 4, 2025

    • EyeLiner

      Public
      Automatic Longitudinal Image Registration using Fundus Landmarks (ARVO 2024)
      Python
      •
      Apache License 2.0
      •486•9•0•0•Updated May 29, 2025May 29, 2025

    • ga_progression_modeling

      Public
      Python
      •0•1•0•0•Updated May 21, 2025May 21, 2025

    • ARVO25_AI4Oph

      Public
      Repo for the ARVO 2025 Artificial Intelligence in Ophthalmic research course
      Jupyter Notebook
      •0•3•0•0•Updated May 4, 2025May 4, 2025

    • Conditional-Diffusion-Editing-basic

      Public
      Python
      •0•0•0•0•Updated Apr 19, 2025Apr 19, 2025

    • re_identification

      Public
      Assessing risk of patient re-identification from features extracted from frozen foundation models in Ophthalmology and Radiology.
      Python
      •1•1•0•0•Updated Apr 17, 2025Apr 17, 2025

    • DICOMParser

      Public
      For CU Ophthalmology Images
      Python
      •
      MIT License
      •0•0•0•1•Updated Apr 8, 2025Apr 8, 2025

    • OPTIMEyes

      Public
      Updated Image Comparator and Classifier
      Jupyter Notebook
      •1•3•3•0•Updated Mar 24, 2025Mar 24, 2025

    • dl-prediction-brca-tiph

      Public
      Implementation of the paper "Deep Learning-based Prediction of Breast Cancer Tumor and Immune Phenotypes from Histopathology" by Tiago Gonçalves, Dagoberto Pulido-Arias, Julian Willett, Katharina V. Hoebel, Mason Cleveland, Syed Rakin Ahmed, Elizabeth Gerstner, Jayashree Kalpathy-Cramer, Jaime S. Cardoso, Christopher P. Bridge and Albert E. Kim.
      Python
      •
      MIT License
      •1•5•0•0•Updated Mar 12, 2025Mar 12, 2025

    • Hereditary_glaucoma

      Public
      Code to download publicly available datasets on disc and cup segmentation from Color Fundus Photos and to train a segmentation model.
      Python
      •1•0•0•0•Updated Jan 30, 2025Jan 30, 2025

    • Hereditary_FeTS22

      Public
      Python
      •0•0•0•0•Updated Jan 30, 2025Jan 30, 2025

    • codabench

      Public
      Codabench is a flexible, easy-to-use and reproducible benchmarking platform. Check our paper at Patterns Cell Press https://hubs.li/Q01fwRWB0
      Python
      •
      Apache License 2.0
      •45•0•0•0•Updated Jan 13, 2025Jan 13, 2025