Helpful tips on how to prepare files for cBioPortal
Preparing your files for upload to cBioPortal requires careful formatting and planning. This guide provides an overview of the process and links to examples, validation tools, and helper scripts.
📄 Required and Optional Study Files
To be accepted for upload, your study must contain some required files. Others are optional but recommended depending on your dataset.
📝 Note: Version 6 of cBioPortal requires at least one non-clinical file.
📄 Panel files
If you have generated data using a panel, your panel should be uploaded into the instance of cBioPortal by an application administrator before you upload your data.
👉 Checkout the available panels on the FH hosted instance of cBioPortal here 👉 Learn more about gene panel formatting here
🛠️ Public Tools to Help Format Your Files
These tools can help convert, validate, or format your data for cBioPortal. Choose the one that fits your data type and workflow best.
For more details, explore the full formatting documentation and helper tools here:
🔗 Full File Format Guide by cBioPortal
🔧 Overview of what a completed data “package” would look like for upload into cBioportal.