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    111 repositories

    • 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 Nov 14, 2024Nov 14, 2024

    • preprocessing

      Public
      `preprocessing` is a python library designed for the purpose of preprocessing MRI data at QTIM. It currently supports reorganization of dicom and nifti files to follow BIDS conventions, dicom to nifti conversion, and preprocessing for brain data. Its outputs are intended to follow the BIDS organizational scheme.
      Python
      •0•1•1•0•Updated Nov 12, 2024Nov 12, 2024

    • Challenges

      Public
      Machine Learning Challenges hosted on Codabench
      Python
      •2•0•0•0•Updated Nov 9, 2024Nov 9, 2024

    • GA_Prospective_Study

      Public
      Python
      •1•0•0•0•Updated Nov 4, 2024Nov 4, 2024

    • wandb-deploy-example

      Public
      A guide to using the free tier of wandb
      Other
      •0•0•0•0•Updated Oct 31, 2024Oct 31, 2024

    • segmentation_generic

      Public
      Segmentation of images
      Python
      •1•0•0•1•Updated Oct 28, 2024Oct 28, 2024

    • fundus_detection_segmentation_pipeline

      Public
      For fundus photography to obtain segmentation-based clinical metrics using a 2-step detection and segmentation pipeline
      Jupyter Notebook
      •0•0•0•0•Updated Oct 24, 2024Oct 24, 2024

    • OptimEYES-Anaylsis

      Public
      For pulling and analyzing data from the Image-Comparator app.
      Jupyter Notebook
      •1•0•0•0•Updated Oct 22, 2024Oct 22, 2024

    • EyeLiner

      Public
      Automatic Longitudinal Image Registration using Fundus Landmarks (ARVO 2024)
      Python
      •
      Apache License 2.0
      •336•1•0•0•Updated Oct 18, 2024Oct 18, 2024

    • CorisDB_Curation

      Public
      Repo for organizing the db scheme of our coris_db
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated Oct 16, 2024Oct 16, 2024

    • model_conversion

      Public
      For cervical cancer model conversion to tflite and executorch for use on edge (android) devices
      Jupyter Notebook
      •0•1•0•0•Updated Oct 15, 2024Oct 15, 2024

    • OPTIMEyes

      Public
      Updated Image Comparator and Classifier
      Jupyter Notebook
      •1•2•3•0•Updated Oct 11, 2024Oct 11, 2024

    • segmentationMonaiLabel

      Public
      Python
      •1•0•0•0•Updated Oct 11, 2024Oct 11, 2024

    • 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
      •28•0•0•0•Updated Sep 17, 2024Sep 17, 2024

    • FL_ViT_pretraining

      Public
      Python
      •0•2•0•0•Updated Sep 16, 2024Sep 16, 2024

    • trame_optimeyes

      Public
      trame tools and visualizations
      Python
      •
      Other
      •2•2•1•0•Updated Sep 12, 2024Sep 12, 2024

    • video_action_annotation

      Public
      JavaScript
      •0•0•0•0•Updated Sep 3, 2024Sep 3, 2024

    • video_action_annotator

      Public
      0•0•0•0•Updated Sep 3, 2024Sep 3, 2024

    • MedSAM

      Public
      Intro to MedSAM Model
      Jupyter Notebook
      •1•1•0•0•Updated Aug 30, 2024Aug 30, 2024

    • federatedLearning_glaucoma_segmentation

      Public
      Federated Learning Optic Disc and Cup Segmentation Model for Glaucoma Monitoring in Color Fundus Photographs(CFPs)
      Python
      •0•1•0•0•Updated Aug 20, 2024Aug 20, 2024

    • Conformal-Prediction-and-MC-Inference-for-Addressing-Uncertainty-in-Cervical-Cancer-Screening

      Public
      Application and comparison of conformal prediction and Monte Carlo inference for cervical cancer screening
      Python
      •0•0•0•0•Updated Aug 2, 2024Aug 2, 2024

    • 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 Jul 5, 2024Jul 5, 2024

    • dinov2_imagenet1k_example

      Public
      To get DinoV2 running on a non-slurm environment on ImageNet 1K
      Python
      •2•4•1•0•Updated Jun 15, 2024Jun 15, 2024

    • RSNA-Pneumonia-Challenge-Models

      Public
      Python
      •0•0•0•1•Updated May 3, 2024May 3, 2024

    • 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•3•0•0•Updated May 3, 2024May 3, 2024

    • hardwareProjects

      Public
      C
      •
      MIT License
      •0•0•0•0•Updated Apr 23, 2024Apr 23, 2024

    • LLM-Report-Labeling

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Mar 30, 2024Mar 30, 2024

    • convert_images

      Public
      Converts images to different formats
      Python
      •0•0•0•0•Updated Mar 21, 2024Mar 21, 2024

    • OphVideoMAE2

      Public
      Python
      •
      MIT License
      •61•0•0•0•Updated Mar 14, 2024Mar 14, 2024

    • imageNet

      Public
      ImageNet Tutorial
      MIT License
      •0•0•0•0•Updated Jan 19, 2024Jan 19, 2024