Best Alternatives to GWAS Bioinformatics MCP Server

Medplum MCP

Runtime: npx

Securely access and manage FHIR healthcare data stored in Medplum.

Galaxy MCP

Runtime: uvx

MCP server for Galaxy bioinformatics platform - connect, execute tools, and manage workflows

Pubmed MCP Server

Runtime: bunx

Comprehensive PubMed MCP Server to search, retrieve, and analyze biomedical literature from NCBI.

Spiderbrain

Runtime: npx

Deterministic context layer for your codebase: change impact, blast radius, answers with receipts.

Prism

Runtime: npx

Local-first repo intelligence for agents: DNA, health, blast radius, and Dispatch jobs.

Rosetta MCP Server

Runtime: uvx

Rosetta/PyRosetta protein modeling and Biotite translation for computational biology

Pubchem MCP Server

Runtime: bunx

MCP server for PubChem. Search compounds, properties, safety, bioactivity, xrefs, and summaries.

Cbioportal

Runtime: npx

cBioPortal MCP — cancer genomics portal.

Blast Scope

Runtime: uvx

Contextual blast-radius scoring for shell commands an AI agent is about to run

HealthChain

Runtime: uvx

Provides typed, validated FHIR tools for agents to create, inspect, code, and check healthcare resources.

Codeindex

Runtime: npx

Structural code intelligence over MCP: symbols, callers, imports and blast radius, 40+ languages.

MCP Freestyle

Runtime: npx

Read-only FreeStyle glucose sensor access via LibreLinkUp. Not a medical device.