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- Introduction
- Seed Database
- Annotation Database
- Web application ARchive
- Importer Tool
- Portal Properties
- Log4j Properties
- MAF Example
- Annotated MAF Example
- Cancer Study Example
This page describes the various files available for download.
This file is a MySQL database dump for seeding a new instance of the cBioPortal. It contains all the necessary background data for a properly functioning cBioPortal website, including cancer types, gene, uniprot-mappings, drug and network data. The file is available for download here:
This file is a MySQL database dump used by our Importer Tool for annotating mutation data files. The file is available for download here:
This is the cBio Portal web application in Web application ARchive (WAR) format. This file is suitable for deployment in a Java EE container like Apache Tomcat. For more information, see our System Requirements wiki page. The file is available for download here:
Note, in previous versions of the cbioportal, password authentication was supported in a separate archive. This is no longer the case. cbioportal.war supports password authentication with minor changes to the portal.properties file. See the Software Configuration wiki page for more information.
The importer tool is a command line java application used to validate and import cancer study data into the cBioPortal database. For more information, visit the Importer Tool wiki page. The file is available for download here:
The portal.properties file contains settings required for a properly functioning cBioPortal. Properties in this file, including database credentials, need to be set according to your local environment. For more information about properly configuring this file, visit the Software Configuration wiki page. The file is available for download here:
The log4j.properties file contains settings required for properly logging of messages for both the cBioPortal website and importer tool. For more information about properly configuring this file, visit the Software Configuration wiki page. The file is available for download here:
The is an example of the file format used to import mutation data into the cBioPortal. It is derived from the Mutation Annotation Format created as part of the TCGA project. The example MAF file is available for download here:
This is an example cancer study dataset for use as reference when creating private data files: