What is the key difference between Repo Graph and HealthChain?

Repo Graph belongs to the Biology & Bioinformatics category with local stdio execution, while HealthChain belongs to the Biology & Bioinformatics category with local stdio execution.

How do I install Repo Graph or HealthChain in Claude Desktop or Cursor?

Copy the mcpServers JSON configuration snippet provided on this page into your claude_desktop_config.json or ~/.cursor/mcp.json file and restart your AI client.

Are Repo Graph and HealthChain free or paid?

Repo Graph operates under a Free / Open Source model (No auth required). HealthChain operates under a Free / Open Source model (No auth required).

Which MCP server has more tools and community activity?

Repo Graph lists 6 tools with 2 views and 15 GitHub stars. HealthChain lists 6 tools with 3 views and 226 GitHub stars.

Can I use both Repo Graph and HealthChain together in the same MCP host?

Yes! MCP hosts like Claude Desktop, Cursor, Windsurf, Cline, and VS Code support configuring multiple servers under the mcpServers object simultaneously.

Side-by-Side Model Context Protocol Comparison

Repo Graph vs HealthChain

In-depth architectural comparison of the Repo Graph and HealthChain MCP servers. Compare execution transports, security boundaries, tool capabilities, quality scores, and ready-to-paste client installation snippets for Claude, Cursor, Windsurf, and VS Code.

At a Glance & Executive Verdict

Repo Graph

Biology & Bioinformatics · Local stdio

Quality: 57/100 (Good) | Auth: No auth required

HealthChain

Biology & Bioinformatics · Local stdio

Quality: 59/100 (Good) | Auth: No auth required

Verdict Summary: Choose Repo Graph if you need specialized Biology & Bioinformatics tools running via a local process. Choose HealthChain if your workspace requires Biology & Bioinformatics integration with local subprocess execution. Both servers can be configured concurrently in your client's mcpServers manifest.

Which MCP Server Should You Choose?

Choose Repo Graph when:

You need dedicated capabilities in the Biology & Bioinformatics domain.
You prefer local stdio subprocess transport architecture.
Your security boundary fits: No auth required (Free / Open Source).
You have access to required keys: REPO_PATH.
Primary tools included: orient, find, impact.

Explore Repo Graph Details

Choose HealthChain when:

You need dedicated capabilities in the Biology & Bioinformatics domain.
You prefer local stdio subprocess transport architecture.
Your security boundary fits: No auth required (Free / Open Source).
Primary tools included: Typed FHIR resource tools, Machine-readable validation reports, FHIR terminology lookup.

Explore HealthChain Details

Feature & Specification Comparison

Specification	Repo Graph James-Chahwan Biology & Bioinformatics	HealthChain healthchainai Biology & Bioinformatics
Summary	Structural graph map of any codebase for AI coding assistants. Scans entities, relationships, and feature flows across 13 languages so LLMs navigate by structure instead of grepping through everything.	Typed, validated FHIR tools for healthcare AI agents — build, read, validate, and code FHIR resources from a patient bundle, with terminology lookup and machine-readable validation reports built for fix-and-retry. pip install healthchain[mcp]
Category & Scope

Tools & Capabilities Breakdown

Repo Graph Tools (6)

orient

The first call on a repo: node/edge counts, detected kinds, entry points, and a **blind-spots** note flagging which languages/edges are under-linked (so you grep those deliberately). `seed=<node>` → scoped map; `full=true` → whole-repo dense map

find

Turn any text into the ranked nodes that matter — a symbol/keyword, or a pasted stacktrace / failing-test id / diff (resolved to the code it implicates). `expand=true` fans out to the surrounding neighbourhood. Every row carries `path:line

impact

Blast radius: what a change affects (`forward`) or depends on / is used by (`backward`), as a ranked, located closure — each row with the edge `via` reason and a `⊘` when the engine finds it unreachable (likely dead). Pass several nodes for a whole-diff radius

trace

One arg: a feature end-to-end across the stack, each hop labelled with its mechanism (call / HTTP / queue / event) and cross-service hops marked. Two args: the shortest path between two nodes

Ready-to-Paste Client Configurations

Paste either (or both) of these JSON server blocks into your client config file (e.g. claude_desktop_config.json or ~/.cursor/mcp.json).

Repo Graph Configuration

mcpServers (Claude Desktop / Cursor)

{
  "mcpServers": {
    "james-chahwan-repo-graph": {
      "command": "uvx",
      "args": [
        "mcp-repo-graph"
      ],
      "env": {
        "REPO_PATH": "YOUR_REPO_PATH_HERE"
      }
    }
  }
}

HealthChain Configuration

mcpServers (Claude Desktop / Cursor)

{
  "mcpServers": {
    "healthchainai-healthchain": {
      "command": "uvx",
      "args": [
        "healthchain"
      ]
    }
  }
}

Frequently Asked Questions

Repo Graph is categorized under Biology & Bioinformatics and uses a local stdio subprocess. In contrast, HealthChain belongs to Biology & Bioinformatics using local stdio subprocess. Select Repo Graph when you need capabilities focused on biology & bioinformatics and HealthChain when you require tools for biology & bioinformatics.

More alternatives to Repo Graph More alternatives to HealthChain Biology & Bioinformatics category hub Canonical compare URL