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    185 repositories

    • ispy-readii

      Public
      Running READII on the I-SPY cohort for radiogenomic analysis.
      Python
      •
      MIT License
      •1•0•0•0•Updated Jan 8, 2025Jan 8, 2025

    • readii-fmcib

      Public
      Taming the unicorn that is FMCIB
      Python
      •
      MIT License
      •0•1•2•0•Updated Jan 8, 2025Jan 8, 2025

    • med-imagetools

      Public
      Transparent and reproducible medical image processing pipelines in Python.
      pythonmachine-learningdeep-learningdicomtorchpytorchmedicalnrrdnifti
      Python
      •
      MIT License
      •9•39•19•5•Updated Jan 8, 2025Jan 8, 2025

    • PharmacoGx

      Public
      R package to analyze large-scale pharmacogenomic datasets.
      datasetspharmacogxpharmacogenomic
      R
      •
      GNU General Public License v3.0
      •26•67•75•0•Updated Jan 7, 2025Jan 7, 2025

    • handbook

      Public
      Lab Handbook For BHKLab
      0•2•25•2•Updated Jan 7, 2025Jan 7, 2025

    • PredictioR

      Public
      HTML
      •
      MIT License
      •0•0•0•0•Updated Jan 3, 2025Jan 3, 2025

    • SignatureSets

      Public
      Compendium of published molecular signatures
      HTML
      •
      MIT License
      •0•0•0•0•Updated Jan 3, 2025Jan 3, 2025

    • readii

      Public
      Radiomic Extraction and Analysis for DICOM Images (READII)
      Jupyter Notebook
      •
      MIT License
      •0•4•25•2•Updated Jan 1, 2025Jan 1, 2025

    • orcestra-downloader

      Public
      Python
      •
      MIT License
      •0•0•0•1•Updated Jan 1, 2025Jan 1, 2025

    • 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•4•15•8•Updated Dec 31, 2024Dec 31, 2024

    • orcestra-icb-datasets

      Public archive
      Python
      •0•0•0•0•Updated Dec 11, 2024Dec 11, 2024

    • orcestra-new-api

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

    • Fluvastatin_terbinafine

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

    • analyze_readii_outputs

      Public
      Code for analyzing outputs from the READII package or the readii-orcestra pipeline.
      Jupyter Notebook
      •
      MIT License
      •0•1•7•0•Updated Dec 3, 2024Dec 3, 2024

    • Xeva

      Public
      XEnograft Visualization & Analysis
      R
      •5•11•5•0•Updated Nov 27, 2024Nov 27, 2024

    • genefu

      Public
      R package providing various functions relevant for gene expression analysis with emphasis on breast cancer.
      HTML
      •13•25•5•1•Updated Nov 27, 2024Nov 27, 2024

    • HNSCC_clinical_data_handling

      Public
      Preprocessing the clinical data from the HNSCC dataset on TCIA
      Jupyter Notebook
      •1•0•0•0•Updated Nov 22, 2024Nov 22, 2024

    • med-imagenet

      Public
      Med-ImageNet processing scripts via Med-ImageTools AutoPipeline
      GNU General Public License v3.0
      •0•1•0•0•Updated Nov 15, 2024Nov 15, 2024

    • CancerPredictiveModelsHeadNeck

      Public
      Python
      •0•1•0•0•Updated Nov 14, 2024Nov 14, 2024

    • SCARF

      Public
      Jupyter Notebook
      •
      Apache License 2.0
      •1•1•0•0•Updated Nov 12, 2024Nov 12, 2024

    • PMATCH-web

      Public
      JavaScript
      •0•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • SYNERGxDB

      Public
      SYNERGxDB is a comprehensive database to explore synergistic drug combinations for biomarker discovery.
      JavaScript
      •1•1•2•0•Updated Oct 30, 2024Oct 30, 2024

    • Quantitative-Review

      Public
      Quantitative review of methods for analyzing multiple regions of interest (ROIs) in the context of engineered radiomics.
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 29, 2024Oct 29, 2024

    • Lung-Lesion-Treatment-Response-Prediction

      Public
      Code + Data for Lung Lesion Treatment Response Prediction
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 29, 2024Oct 29, 2024

    • KuLGaP

      Public
      KuLGap is a web application that allows users to calculate KuLGaP as well as several other measurements of response to anti-tumour therapy.
      JavaScript
      •0•0•2•0•Updated Oct 22, 2024Oct 22, 2024

    • pyradiomics-fork

      Public
      [FORK] Open-source python package for the extraction of Radiomics features from 2D and 3D images and binary masks. Support: https://discourse.slicer.org/c/community/radiomics
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •503•0•0•0•Updated Oct 21, 2024Oct 21, 2024

    • CBWWorkshop2024

      Public
      R
      •
      Other
      •2•1•0•0•Updated Oct 18, 2024Oct 18, 2024

    • tissue-biomarker-pipeline

      Public
      A pipeline to run meta-analysis of biomarkers in preclinical PGx data using Snakemake, R, Julia, and the cloud
      R
      •0•0•0•0•Updated Oct 8, 2024Oct 8, 2024

    • CoreGx

      Public
      Shared code for both PharmacoGx and RadioGx
      pharmacogx-backendradiogxpharmacogxtoxicogx
      R
      •
      GNU General Public License v3.0
      •3•2•11•0•Updated Sep 12, 2024Sep 12, 2024

    • PharmacogenomicsWorkshop2024

      Public
      MIT License
      •0•0•0•0•Updated Sep 10, 2024Sep 10, 2024