What is the best alternative to Cbioportal?

The top-rated alternatives to Cbioportal in the Biology & Bioinformatics category include Ensembl, GWAS Bioinformatics MCP Server, Medplum MCP. These servers offer complementary or alternative capabilities depending on your deployment stack and authentication requirements.

How do Cbioportal alternatives differ in installation and runtime?

Cbioportal and its alternatives vary by runtime requirement (Node.js/npx, Python/uvx, Docker, or remote HTTP/SSE endpoints). Check the specification comparison table above to verify command requirements before installing.

Are alternatives to Cbioportal free and open source?

Most MCP servers listed on AllMCPs are open source tools under MIT or Apache licenses that you can self-host or run locally with Claude Desktop, Cursor, VS Code, or Windsurf.

How do I side-by-side compare Cbioportal with a specific alternative?

Click the "Compare side-by-side →" button on any alternative card to see an in-depth comparison matrix covering feature lists, stars, npm downloads, install configurations, and schema specifications.

Best Alternatives to Cbioportal (Biology & Bioinformatics)

Server Name	Runtime	Auth	Pricing	GitHub Stars	Downloads	Action
Cbioportal (Target)	Remote (SSE)	Free/None	Free	—	—	Current
E Ensembl	Remote (SSE)	Free/None	Free	—	—	Compare →
G GWAS Bioinformatics MCP Server	uvx	Free/None	Free	1	—	Compare →
Medplum MCP	Remote (SSE)	Free/None	Free	2,655	—	Compare →
Galaxy MCP	uvx	Free/None	Free	38	—	Compare →
Pubmed MCP Server	bunx	Free/None	Free	147	—	Compare →
Sniff MCP	uvx	Free/None	Free	—	—	Compare →
Spiderbrain	npx	Free/None	Free	3	—	Compare →
A Alphafold	Remote (SSE)	Free/None	Free	—	—	Compare →
Protein Atlas	Remote (SSE)	Free/None	Free	—	—	Compare →
Prism	npx	Free/None	Free	3	—	Compare →
Rosetta MCP Server	uvx	Free/None	Free	18	—	Compare →
Mesh	Remote (SSE)	Free/None	Free	—	—	Compare →