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    49 repositories

    • scGPT-spatial

      Public
      Jupyter Notebook
      •
      MIT License
      •7•50•1•0•Updated Feb 13, 2025Feb 13, 2025

    • MorphoDiff

      Public
      This is the official repository of MorphoDiff, a diffusion based generative pipeline to predict high-resolution cell morphological responses under different conditions based on perturbation encoding.
      Jupyter Notebook
      •
      Apache License 2.0
      •2•7•1•0•Updated Feb 11, 2025Feb 11, 2025

    • MedRAX

      Public
      MedRAX: Medical Reasoning Agent for Chest X-ray
      agentmedicalhealthcaremedical-imagingchest-xraychest-xraysreasoning-agentlangchainagentic-frameworkagentic-ai
      Python
      •
      Apache License 2.0
      •60•328•6•0•Updated Feb 10, 2025Feb 10, 2025

    • AGILE

      Public
      AGILE Platform: A Deep Learning-Powered Approach to Accelerate LNP Development for mRNA Delivery
      Python
      •
      MIT License
      •4•32•3•0•Updated Feb 9, 2025Feb 9, 2025

    • AgentTutorial

      Public
      Jupyter Notebook
      •
      Apache License 2.0
      •0•7•0•0•Updated Feb 3, 2025Feb 3, 2025

    • IntegrAO

      Public
      Integrate Any Omics: Towards genome-wide data integration for patient stratification
      Jupyter Notebook
      •
      MIT License
      •6•33•1•0•Updated Jan 27, 2025Jan 27, 2025

    • Orthrus

      Public
      Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifically designed for long-sequence data, such as RNA.
      Python
      •
      MIT License
      •8•52•3•0•Updated Jan 21, 2025Jan 21, 2025

    • genomic-FM

      Public
      genetic-variantsfoundation-models
      Python
      •3•20•1•0•Updated Jan 20, 2025Jan 20, 2025

    • ECG-FM

      Public
      An electrocardiogram analysis foundation model.
      machine-learninghealthcaretransformerelectrocardiogramfoundation-modelsmimic-iv-ecgphysionet2021
      Jupyter Notebook
      •
      MIT License
      •5•122•2•0•Updated Jan 7, 2025Jan 7, 2025

    • MedSAMSlicer

      Public
      3D Slicer Plugin for Segment anything in medical images
      3d-slicer-extension
      Python
      •25•200•1•1•Updated Dec 31, 2024Dec 31, 2024

    • PANORAMA

      Public
      0•1•0•0•Updated Dec 10, 2024Dec 10, 2024

    • csc413-2024

      Public
      Jupyter Notebook
      •
      MIT License
      •2•1•0•0•Updated Nov 22, 2024Nov 22, 2024

    • OCAT

      Public
      Python
      •
      GNU General Public License v3.0
      •3•17•2•0•Updated Oct 22, 2024Oct 22, 2024

    • BLEEP

      Public
      Spatially Resolved Gene Expression Prediction from H&E Histology Images via Bi-modal Contrastive Learning
      Python
      •
      Apache License 2.0
      •11•69•1•0•Updated Oct 22, 2024Oct 22, 2024

    • MedSAM

      Public
      Segment Anything in Medical Images
      Jupyter Notebook
      •
      Apache License 2.0
      •449•3.3k•6•1•Updated Oct 10, 2024Oct 10, 2024

    • AMOS-MM-Solution

      Public
      Solution to the AMOS-MM challenge
      Python
      •
      MIT License
      •0•5•1•0•Updated Sep 14, 2024Sep 14, 2024

    • scGPT

      Public
      gptsingle-cellfoundation-model
      Jupyter Notebook
      •
      MIT License
      •233•1.1k•123•7•Updated Aug 1, 2024Aug 1, 2024

    • evlp_xray_vision

      Public
      Computer vision models for EVLP lung X-ray images.
      Python
      •
      MIT License
      •0•0•0•0•Updated Jul 2, 2024Jul 2, 2024

    • CellSeg-Transformers

      Public
      Python
      •
      Apache License 2.0
      •1•11•0•0•Updated May 7, 2024May 7, 2024

    • U-Mamba

      Public
      U-Mamba: Enhancing Long-range Dependency for Biomedical Image Segmentation
      Python
      •
      Apache License 2.0
      •73•744•34•0•Updated Apr 4, 2024Apr 4, 2024

    • DeepVelo

      Public
      Python
      •
      MIT License
      •9•46•5•3•Updated Feb 7, 2024Feb 7, 2024

    • Graph-Mamba

      Public
      Graph-Mamba: Towards Long-Range Graph Sequence Modelling with Selective State Spaces
      Python
      •35•266•5•0•Updated Feb 2, 2024Feb 2, 2024

    • BIONIC

      Public
      Biological Network Integration using Convolutions
      Python
      •
      MIT License
      •5•61•1•8•Updated Jan 17, 2024Jan 17, 2024

    • ViST-Echo

      Public
      PD's thesis work towards a Video Swin Transformer for echocardiographic data.
      Python
      •0•1•0•0•Updated Oct 20, 2023Oct 20, 2023

    • DPM-MedImgEnhance

      Public
      Pre-trained Diffusion Models for Plug-and-Play Medical Image Enhancement
      Python
      •3•23•1•0•Updated Oct 3, 2023Oct 3, 2023

    • MAESTER

      Public
      Masked Autoencoder Guided Segmentation at Pixel Resolution
      Python
      •
      MIT License
      •6•16•1•1•Updated Oct 3, 2023Oct 3, 2023

    • CongFu

      Public
      CongFu: Conditional Graph Fusion for Drug Synergy Prediction
      Python
      •3•6•2•0•Updated Sep 11, 2023Sep 11, 2023

    • MEDIQA-Chat-2023

      Public
      A repository for organizing our submission to the MEDIQA-Chat Tasks @ ACL-ClinicalNLP 2023
      Python
      •
      MIT License
      •7•21•3•0•Updated Jul 21, 2023Jul 21, 2023

    • InsighTx

      Public
      An Extreme Gradient Boosting (XGBoost) model using ex vivo lung perfusion data to classify lung transplant outcomes
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jul 18, 2023Jul 18, 2023

    • SIMLR_PY

      Public
      Python version of SIMLR
      Python
      •
      MIT License
      •0•3•0•2•Updated Jul 6, 2023Jul 6, 2023