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methods-mcp

MCP server for structured methods extraction + reproducibility heuristics on academic papers.

Connector by FlynnLachendro · GitHub account verified by the MCP Registry

IndexedMITLocal (stdio)
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Install

Works with Claude Code, Codex, VS Code, Cursor, Windsurf, Claude Desktop. Read the repository before you give any tool access to your data.

npx agentmarket install connector/flynnlachendro-methods-mcp

Asks which of your tools to add it to (Claude Code, Codex, Cursor, VS Code, Windsurf, Gemini CLI, Claude Desktop) and shows the change first. See https://agentmart.dev/cli.

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About

MCP server for structured methods extraction + reproducibility heuristics on academic papers.

Reviews

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Permissions

What this server can do and what it asks for, from its tool list and install config. Checked Oct 25, 2026.

Tools
7 read · 0 write · 0 delete · 1 not yet classified
Secrets
2 (API keys, tokens or passwords)
Install scripts
Not scanned yet
Runs as
Python package

Tools by what they do 8

Read from the source code; the running server may list different tools.

Read 7 · Look things up without changing anything.

  • extract_methods
  • fetch_paper_text
  • find_code_repo
  • get_paper_metadata
  • health
  • methods_repro_review
  • summarize_paper

Not yet classified 1 · We could not tell from the name and description.

  • assess_repo_reproducibility

Secrets and settings it asks for

Secrets: values you paste in that let it act as you.

  • ANTHROPIC_API_KEY
  • GITHUB_TOKEN

Other settings (environment variables or headers).

  • METHODS_MCP_MODEL

Tools (8)

Read from the source code; the running server may differ. Descriptions are the server’s own words; hidden characters are shown as [U+…].

  • assess_repo_reproducibility

    Heuristic, no-clone reproducibility assessment of a GitHub repo. Returns a verdict (likely-reproducible / partial / unlikely / insufficient-info) plus weighted signals: README quality, dependency files, fixture data, notebooks, figure-generating scripts, recent maintenance, license. No code is downloaded or executed. Set GITHUB_TOKEN to raise the API rate limit.

  • extract_methods

    Extract a structured methods object from a paper. Pulls full text, isolates the methods-relevant section(s), then asks Claude (default: claude-sonnet-4-6) to fill out a Pydantic schema with steps, reagents, equipment, and analyses. Validation-enforced — invalid responses trigger one repair attempt before raising. Requires ANTHROPIC_API_KEY in the server's environment.

  • fetch_paper_text

    Return best-effort full text + section split for a paper. prefer: one of "auto" (default), "html" (force ar5iv HTML — arXiv only), or "pdf". Sections are normalised to lowercase canonical names: abstract, introduction, methods, experiments, results, discussion, conclusion, limitations, related_work.

  • find_code_repo

    Discover the code repo (if any) associated with a paper. Strategy: scan the paper's full text and abstract for github.com URLs; fall back to Papers With Code lookup for arXiv papers.

  • get_paper_metadata

    Resolve an arXiv ID/URL, bioRxiv URL, DOI, or generic URL to canonical metadata. For arXiv inputs this hits the arXiv export API to fetch title/authors/abstract. Other sources return the resolved URL with empty bibliographic fields (cheap by design).

  • health

    Return a small health report — confirms the server is alive and configured.

  • methods_repro_review

    Resolve a paper + extract methods + find its code repo + assess reproducibility — in one call. Returns a `MethodsReproReview` object. **Read `narrative` first** — it's a plain-English summary of everything retrieved, with every numeric score echoed in context (e.g. "moderate confidence (0.72)"). Then: - `status`: `"ok"` (all sub-steps succeeded), `"partial"` (some failed — see `errors`), or `"empty"` (couldn't even resolve the input paper). - `metadata`, `methods`, `code_repo`, `repro_assessment`: the structured sub-results. Any step that failed contributes `null` for its key; `null` m…

  • summarize_paper

    Generate an LLM summary of a paper in one of three modes. abstract = 2-3 sentences close to the authors' framing. tldr = one-line takeaway. exec = executive summary (what / found / why-it-matters).

Signals

Stars
0
Forks
0
Open issues
0
Weekly downloads
35
Last commit
Apr 15, 2026 (6 months ago)
Last release
Apr 15, 2026 (6 months ago)
Last package publish
Apr 15, 2026 (6 months ago)

From GitHub (fetched Oct 24, 2026) and the package registry.

Details

Registry name
io.github.FlynnLachendro/methods-mcp
Version
0.1.7
Auth
API key
Packages
pypi methods-mcp
License
MIT
Repository
github.com/FlynnLachendro/methods-mcp
Website
github.com/FlynnLachendro/methods-mcp
First seen
Oct 24, 2026
Last checked
Oct 24, 2026
Source
Official MCP Registrygithub-graphql
Cite this page

methods-mcp. Agent Mart. https://agentmart.dev/connectors/flynnlachendro-methods-mcp (last updated 2026-10-24)