Repositories list

• annotationdb-api

  Public
  API for interfacing with AnnotationDB

  Python

  •0•0•0•0•Updated Sep 22, 2025Sep 22, 2025

• sarc-pgx-biomarker

  Public
  Biomarker Discovery in Soft Tissue Sarcoma Using Pharmacogenomics Data

  R

  •0•0•0•0•Updated Sep 19, 2025Sep 19, 2025

• recist-vs-reality

  Public
  placeholder

  Jupyter Notebook

  •0•0•0•3•Updated Sep 19, 2025Sep 19, 2025

• conformal-ffs

  Public
  Feature selection to find an optimal subset of features

  Jupyter Notebook

  •0•0•0•1•Updated Sep 19, 2025Sep 19, 2025

• PredictioR

  Public
  An R Package for Biomarker Discovery in Immuno-Oncology Therapy Response

  HTML

  •

  MIT License

  •0•0•0•0•Updated Sep 17, 2025Sep 17, 2025

• SignatureSets

  Public
  Compendium of published molecular signatures

  HTML

  •

  MIT License

  •0•0•0•0•Updated Sep 17, 2025Sep 17, 2025

• science-portal-mailing

  Public
  Python

  •0•0•0•2•Updated Sep 17, 2025Sep 17, 2025

• handbook

  Public
  Lab Handbook For BHKLab

  0•4•44•14•Updated Sep 16, 2025Sep 16, 2025

• readii_2_roqc

  Public
  Jupyter Notebook

  •0•0•2•1•Updated Sep 12, 2025Sep 12, 2025

• PredictIO-UV-Dist

  Public
  Distributed univariable predictive modelling for Immuno-Oncology response

  R

  •0•0•25•1•Updated Sep 12, 2025Sep 12, 2025

• XevaDB

  Public
  XevaDB is a database for PDX pharmacogenomic data.

  pdxpatientderivedxenografts

  JavaScript

  •0•1•14•0•Updated Sep 12, 2025Sep 12, 2025

• XevaDI

  Public
  The XevaDI is a python package that transforms the CSV files from the Xeva set to create the database table for XevaDB.

  Python

  •0•0•0•0•Updated Sep 12, 2025Sep 12, 2025

• BrachyMINTS

  Public
  0•0•0•0•Updated Sep 5, 2025Sep 5, 2025

• synthLethal

  Public
  R

  •

  Other

  •0•0•0•0•Updated Sep 2, 2025Sep 2, 2025

• nbia-toolkit

  Public
  Python package for programmatic access to the National Biomedical Imaging Archive (NBIA) and The Cancer Imaging Archive (TCIA)

  dicomapi-clientsorting-algorithms+ 13dicom-imagesoauth2-clientmedical-informaticstcia-dacidctciamedical-imaging-datasets+ 6

  Python

  •

  MIT License

  •1•10•6•1•Updated Aug 26, 2025Aug 26, 2025

• med-imagenet

  Public
  Med-ImageNet processing scripts via Med-ImageTools AutoPipeline

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Aug 26, 2025Aug 26, 2025

• PharmacoGx

  Public
  R package to analyze large-scale pharmacogenomic datasets.

  datasetspharmacogxpharmacogenomic

  R

  •

  GNU General Public License v3.0

  •26•70•73•0•Updated Aug 26, 2025Aug 26, 2025

• CoreGx

  Public
  Shared code for both PharmacoGx and RadioGx

  pharmacogx-backendradiogxpharmacogx+ 1toxicogx

  R

  •

  GNU General Public License v3.0

  •3•2•11•0•Updated Aug 25, 2025Aug 25, 2025

• query_papers

  Public
  Simple PubMed Query Runner

  Python

  •0•0•0•0•Updated Aug 21, 2025Aug 21, 2025

• Xeva

  Public
  XEnograft Visualization & Analysis

  R

  •5•11•6•0•Updated Aug 14, 2025Aug 14, 2025

• clinical-data-mapping

  Public
  Clinical data mapping is a project to standardize the Cancer Imaging Archive (TCIA) clinical data

  Jupyter Notebook

  •0•0•0•1•Updated Aug 13, 2025Aug 13, 2025

• pset-viability-curve-outlier-detection-by-tissue

  Public
  R

  •0•0•0•0•Updated Aug 12, 2025Aug 12, 2025

• summarize-replicates-possible-solution

  Public
  R

  •0•0•0•0•Updated Aug 11, 2025Aug 11, 2025

• 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

  •531•0•0•0•Updated Jul 31, 2025Jul 31, 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•5•20•8•Updated Jul 31, 2025Jul 31, 2025

• med-imagetools

  Public
  Transparent and reproducible medical image processing pipelines in Python.

  pythonmachine-learningdeep-learning+ 6dicomtorchpytorchmedicalnrrdnifti

  Python

  •

  MIT License

  •10•50•26•3•Updated Jul 30, 2025Jul 30, 2025

• MetaGxOvarian

  Public
  R

  •2•1•0•0•Updated Jul 30, 2025Jul 30, 2025

• PredictIO-MV-Dist

  Public
  Distributed multivariable predictive modelling for Immuno-Oncology response

  R

  •0•0•13•1•Updated Jul 28, 2025Jul 28, 2025

• ml-pipeline-aircheck

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Jul 24, 2025Jul 24, 2025

• ispy2-r2r

  Public
  Running READII-2-ROQC on ISPY2

  HTML

  •0•0•32•1•Updated Jul 22, 2025Jul 22, 2025