cbioportal

A software toolkit for the interconversion of standard data models for phenotypic data

Agent execution layer for biology workflows: batch gene scanning, tumor cohort briefing, target discovery — with structured outputs, resume, and pipeline-ready artifacts

cBioPortal is a data visualization tool for cancer genomics. This repository contains all components to deploy the customized version of cBioPortal used in the PM4Onco use case of the Medical Informatics Initiative Germany.

A context to create cBioPortal docker images

Generate, manage and edit data and metadata files suitable for the import in cBioPortal for Cancer Genomics.

A repository with easy-to-follow instructions on how to prepare you study data files for upload into cBioportal

cBioPortal topic branches at The Hyve

This repository contains all machine learning and statistical models used to analyze the landscape of colorectal cancer.

Data extraction, transformation and loading pipeline for the Princess Maxima Center

🧬 Convert FoundationOne genomic reports to cBioPortal OncoPrinter format — visualize mutations, CNVs, and fusions

React Frontend of cBioPortal 🎉

Analisis genomico del cancer de mama con el dataset METABRIC (cBioPortal): PCA, clustering, supervivencia, ML, multi-omica y modelos de riesgo.

Contradiction-aware cancer gene hypothesis triage app using public-data evidence layers.

Kaplan-Meier and Cox analysis of IDH and 1p/19q status in TCGA glioma (n=607)

End-to-end cancer variant annotation and prioritization pipeline in Python using a real public cBioPortal breast cancer study, including mutation filtering, ranking, burden analysis, and oncoprint-style visualization.

a collection of notebooks containing analysis and visualization methods with publicly available data

Open-source cancer genomics and biomedical AI evidence portal with MAMMAL-powered interpretation, local LLM explanations, evidence auditing, risk flagging, optional cBioPortal API data retrieval, and human-reviewable cancer reports.

Download scripts for public cancer data (GEO, cBioPortal, TCGA/GDC) with size checks, checksums and tests

The Cancer Genome Atlas (TCGA), a cancer genomics reference program, has molecularly characterized more than 20,000 primary cancer samples and paired normal samples covering 33 types of cancer. This joint effort between the NCI and the National Human Genome Research Institute began in 2006.

Run cBioPortal using Docker Compose