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    246 repositories

    • ORCESTRA

      Public
      ORCESTRA is a new web application that enables users to search, request and manage pharmacogenomic datasets (PSets).
      JavaScript
      •
      Apache License 2.0
      •2•5•29•8•Updated Apr 23, 2026Apr 23, 2026

    • ocscc-tumor-characterization

      Public
      OCSCC Tumor Characterization applies MedSAM segmentation to an oral cavity squamous cell cancer patient cohort to explore how it affects treatment planning.
      Jupyter Notebook
      •0•0•0•1•Updated Apr 23, 2026Apr 23, 2026

    • lincs-pipeline

      Public
      Pipeline for computing LINCS signatures from the raw data
      Python
      •0•0•0•0•Updated Apr 23, 2026Apr 23, 2026

    • AnnotationGx

      Public
      An R package to query various bio/chem-informatics databases APIs to construct annotation files.
      R
      •
      MIT License
      •1•2•10•2•Updated Apr 21, 2026Apr 21, 2026

    • DeepCINET

      Public
      Jupyter Notebook
      •
      MIT License
      •0•1•0•3•Updated Apr 21, 2026Apr 21, 2026

    • PharmacoGx

      Public
      R package to analyze large-scale pharmacogenomic datasets.
      datasetspharmacogxpharmacogenomic
      datasetspharmacogxpharmacogenomic
      R
      •
      GNU General Public License v3.0
      •26•71•74•4•Updated Apr 20, 2026Apr 20, 2026

    • geom-pipeline

      Public
      Pipeline to process the 3D structures from the GEOM database
      Python
      •0•0•0•1•Updated Apr 20, 2026Apr 20, 2026

    • bhklab-nninteractive

      Public
      bhklab-nnInteractive is a project which tests the nnInteractive medical image segmentation model using RECIST and RERECIST input prompts and evaluates its perfo…
      Jupyter Notebook
      •0•0•0•0•Updated Apr 20, 2026Apr 20, 2026

    • recist-vs-reality

      Public
      Development of the AI-Augmented Response Assessment
      Jupyter Notebook
      •0•0•0•1•Updated Apr 20, 2026Apr 20, 2026

    • med-imagetools

      Public
      Transparent and reproducible medical image processing pipelines in Python.
      pythonmachine-learningdeep-learning
      pythonmachine-learningdeep-learningdicomtorchpytorchmedicalnrrdnifti
      Python
      •
      MIT License
      •9•59•30•6•Updated Apr 17, 2026Apr 17, 2026

    • readii

      Public
      Radiomic Extraction and Analysis for DICOM Images (READII)
      Jupyter Notebook
      •
      MIT License
      •0•5•29•3•Updated Apr 15, 2026Apr 15, 2026

    • novartis_pdxe_xevaset

      Public
      HTML
      •0•0•1•0•Updated Apr 15, 2026Apr 15, 2026

    • retiring-the-ruler

      Public
      Simulation code accompanying the Retiring the Ruler: Toward a Volumetric, Multi-Lesion, Longitudinal Lens on Tumor Response paper.
      Python
      •0•0•0•2•Updated Apr 15, 2026Apr 15, 2026

    • bhklab-website

      Public
      BHK Lab website
      JavaScript
      •0•0•6•0•Updated Apr 14, 2026Apr 14, 2026

    • readii_2_roqc

      Public
      Jupyter Notebook
      •1•2•4•0•Updated Apr 14, 2026Apr 14, 2026

    • ImageMol

      Public
      ImageMol is a molecular image-based pre-training deep learning framework for computational drug discovery.
      Python
      •
      MIT License
      •29•0•0•0•Updated Apr 10, 2026Apr 10, 2026

    • handbook

      Public
      Lab Handbook For BHKLab
      0•3•43•3•Updated Apr 9, 2026Apr 9, 2026

    • Science-portal

      Public
      TypeScript
      •0•0•3•1•Updated Apr 9, 2026Apr 9, 2026

    • med-imagenet

      Public
      Med-ImageNet processing scripts via Med-ImageTools AutoPipeline
      Python
      •
      GNU General Public License v3.0
      •0•2•3•0•Updated Apr 7, 2026Apr 7, 2026

    • MetaGxOvarian

      Public
      R
      •2•1•0•0•Updated Apr 1, 2026Apr 1, 2026

    • cpg0016-emb-pipeline

      Public
      HTML
      •0•0•0•0•Updated Apr 1, 2026Apr 1, 2026

    • science-portal-mailing

      Public
      Python
      •1•0•2•1•Updated Mar 31, 2026Mar 31, 2026

    • lab-website-data-refresh

      Public
      Repository containing scripts that merge data from external sources into our databases
      Python
      •0•0•0•0•Updated Mar 30, 2026Mar 30, 2026

    • aaura-bench-preprocess

      Public
      Preprocessing of datasets for use in the AAuRA Benchmarking tool.
      Jupyter Notebook
      •0•0•0•1•Updated Mar 18, 2026Mar 18, 2026

    • damply

      Public
      Data Management Plan made simple
      Python
      •0•0•3•0•Updated Mar 16, 2026Mar 16, 2026

    • bhklab-project-template

      Public
      Setup FAIR and DMP compliant projects with one command
      templatepixifair
      templatepixifair
      Python
      •
      MIT License
      •0•2•5•1•Updated Mar 16, 2026Mar 16, 2026

    • med-image_index

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Mar 6, 2026Mar 6, 2026

    • bhklab-BiomedParse

      Public
      BiomedParse: A Foundation Model for Joint Segmentation, Detection, and Recognition of Biomedical Objects Across Nine Modalities
      Python
      •
      Apache License 2.0
      •100•0•0•0•Updated Mar 3, 2026Mar 3, 2026

    • ispy2-r2r

      Public
      Running READII-2-ROQC on ISPY2
      HTML
      •0•0•34•1•Updated Feb 28, 2026Feb 28, 2026

    • orcestra-new-api

      Public
      Python
      •1•0•11•0•Updated Feb 25, 2026Feb 25, 2026
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