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@bhklab

BHKLAB

The Haibe-Kains Laboratory @ Princess Margaret Cancer Centre
README.md

Mission

Our overarching goal consists of developing cutting-edge computational tools and predictive models to identify new cancer vulnerabilities and improve the way precision oncology is delivered to patients.

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  1. PharmacoGx PharmacoGx Public

    R package to analyze large-scale pharmacogenomic datasets.

    R 68 26

  2. med-imagetools med-imagetools Public

    Transparent and reproducible medical image processing pipelines in Python.

    Python 42 9

  3. CoreGx CoreGx Public

    Shared code for both PharmacoGx and RadioGx

    R 2 3

  4. AnnotationGx AnnotationGx Public

    An R package to query various bio/chem-informatics databases APIs to construct annotation files.

    R 1 1

  5. readii readii Public

    Radiomic Extraction and Analysis for DICOM Images (READII)

    Jupyter Notebook 4

  6. orcestra-downloader orcestra-downloader Public

    Python

Repositories

Showing 10 of 188 repositories
  • public_image_data_curation Public

    Code to collect info about publicly available medical image datasets for curation

    bhklab/public_image_data_curation’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Feb 20, 2025
  • med-imagenet Public

    Med-ImageNet processing scripts via Med-ImageTools AutoPipeline

    bhklab/med-imagenet’s past year of commit activity
    Jupyter Notebook 1 GPL-3.0 0 0 0 Updated Feb 20, 2025
  • med-imagetools Public

    Transparent and reproducible medical image processing pipelines in Python.

    bhklab/med-imagetools’s past year of commit activity
    Python 42 MIT 9 18 7 Updated Feb 20, 2025
  • handbook Public

    Lab Handbook For BHKLab

    bhklab/handbook’s past year of commit activity
    3 0 25 (2 issues need help) 1 Updated Feb 19, 2025
  • tissue-biomarker-pipeline Public

    A pipeline to run meta-analysis of biomarkers in preclinical PGx data using Snakemake, R, Julia, and the cloud

    bhklab/tissue-biomarker-pipeline’s past year of commit activity
    R 0 0 0 0 Updated Feb 19, 2025
  • med-image_test-data Public
    bhklab/med-image_test-data’s past year of commit activity
    Python 1 0 0 0 Updated Feb 14, 2025
  • readii Public

    Radiomic Extraction and Analysis for DICOM Images (READII)

    bhklab/readii’s past year of commit activity
    Jupyter Notebook 4 MIT 0 25 (1 issue needs help) 3 Updated Feb 14, 2025
  • ispy-readii Public

    Running READII on the I-SPY cohort for radiogenomic analysis.

    bhklab/ispy-readii’s past year of commit activity
    Python 0 MIT 1 0 0 Updated Feb 13, 2025
  • SCARF Public
    bhklab/SCARF’s past year of commit activity
    Python 1 Apache-2.0 1 0 0 Updated Feb 10, 2025
  • PMATCH-web Public
    bhklab/PMATCH-web’s past year of commit activity
    JavaScript 0 0 0 0 Updated Feb 4, 2025
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