Documentation and Implement Scripts for Deploying cBioPortal Datasets with Imaging Data

[dippindots]

Description

To facilitate adoption of spatial imaging data in cBioPortal, this task focuses on creating comprehensive documentation for deploying cBioPortal studies with imaging data. This includes step-by-step guides and automated scripts.

✅ Tasks

• Write detailed documentation on deploying imaging datasets in cBioPortal.
• Implement scripts for automating dataset setup.
• Document best practices for spatial feature extraction.
• Publish the documentation on cBioPortal Docs.

📅 Timeline

📌 May - Aug 2025

📖 References

• cBioPortal Docs
• Minerva Integration Pipeline

[yjrathod]

Hey, there!!

I’m really excited about this issue and would love to contribute! I’ve been researching both cBioPortal and the Minerva Integration Pipeline since last three days, and I now understand how imaging data fits into cBioPortal’s data structure.

My Understanding of the Issue

• This task is about documenting and automating the process of deploying imaging datasets into cBioPortal.
• Since cBioPortal was originally built for genomic data, adding imaging datasets requires proper formatting, metadata linking, and validation before deployment.
• Minerva seems to play a key role in pre-processing imaging data before it’s added to cBioPortal, especially for spatial feature extraction and dataset structuring.

Why I’m Interested in This

I’m passionate about **open-source contributions **, and this issue is a great opportunity to:
✅ Improve cBioPortal by making imaging data integration easier.
✅ Work on automation scripts to simplify dataset deployment.
✅ Learn and document best practices for spatial imaging data processing.

Questions Before I Start

1️⃣ Is it all things right which I understood so far and if there is any improvement then just let me know
2️⃣ What format should the automation scripts be in? (Python, Bash, or something else?)
3️⃣ Will this be a collaborative/team issue, or is it meant to be tackled individually?