Welcome to the documentation for cBioPortal! Below you can find an index of all available documentation to help you to deploy and maintain a local instance of cBioPortal, as well as information on how to upload data. Specific pages are also available for developers. For details on contributing code changes and pull-requests to cBioPortal, please see our CONTRIBUTING Doc.

We also maintain an active list of RFCs (Requests for Comments) where we describe new features and solicit community feedback.

1. General

• ​News​

• ​Frequently Asked Questions​

• ​About Us​

• ​List of RFCs​

2. cBioPortal Deployment

2.1 Deployment

• ​Architecture overview​

• ​Hardware Requirements​

2.1.1 Deploy with Docker (Recommended)

• ​Deploy with Docker​

• ​Example Commands​

• ​Authenticating and Authorizing Users using Keycloak in Docker​

2.1.2 Deploy without Docker

• ​Software Requirements​

• ​Pre-Build Steps​

• ​Building from Source​

• ​Importing the Seed Database​

• ​Deploying the Web Application​

• ​Loading a Sample Study​

2.2 Authorization and Authentication

• ​User Authorization​

• ​Authenticating Users via SAML​

• ​Authenticating Users via LDAP​

• ​Authenticating and Authorizing Users via Keycloak​

• ​Authenticating Users via Tokens​

2.3 Customization

• ​Customizing your cBioPortal Instance via portal.properties​

• ​More portal.properties Settings​

3. cBioPortal Maintenance

• ​Updating your cBioPortal Database Scheme​

• ​Update genes and gene aliases​

4. Development

• ​cBioPortal Entity-relationship Diagram​

• ​Using the Data Manager to Get Data and Set Session Parameters​

• ​Accessing Services via the Web-API​

  • ​API and API Client​

• ​Providing cBioPortal Parameters​

• ​Manual test cases​

• ​Build cBioPortal with a different frontend version​

• ​Release-Procedure​

• ​Deployment-Procedure​

5. Data Loading

5.1 Data Loading

• ​Data Loading Overview​

  • ​Using the Dataset Validator​

  • ​Using the metaImport Script​

  • ​File Formats​

    • ​Z-Score Normalization​

  • ​Maintaining Studies​

  • ​For Developers​

  • ​Tips and Best Practices​

  • ​Importing Gene Sets for Gene Set Scoring Data​

  • ​Importing Gene Panels​

  • ​Study View Customization with Priority Data​

5.2 Datasets

• ​Downloads​