The scholar-toolkit-mcp server is a comprehensive academic research toolkit for searching, downloading, reading, and managing papers across 20+ platforms, plus manuscript processing and reference management.
Multi-Source Paper Search: Unified search (search_papers) across 20+ platforms simultaneously with deduplication — including arXiv, PubMed, bioRxiv, medRxiv, Semantic Scholar, Crossref, OpenAlex, PMC, CORE, Europe PMC, dblp, OpenAIRE, CiteSeerX, DOAJ, BASE, Zenodo, HAL, SSRN, and Unpaywall. Individual source-specific search functions are also available, with filtering by year, sort order, and other parameters.
Paper Download: Direct PDF downloads from supported platforms (arXiv, bioRxiv, medRxiv, IACR, Semantic Scholar, PMC, CORE, Zenodo, HAL, etc.), plus a robust download_with_fallback chain that tries source-native links → OA repositories → Unpaywall → optional Sci-Hub.
Paper Reading (Text Extraction): Extract full text from papers for supported sources (arXiv, bioRxiv, medRxiv, IACR, Semantic Scholar, CORE, Europe PMC, Zenodo, HAL, CiteSeerX, DOAJ, BASE, OpenAIRE).
Manuscript Processing: Process Markdown files with citation placeholders ([@doi:...], [@pmid:...], [@arxiv:...], [@title:...]) to produce numbered Markdown, BibTeX (refs.bib), RIS (refs.ris), and optionally Word documents (.docx via pandoc). Supports citation styles: GB/T 7714-2015, APA 7th, IEEE, Vancouver, and Harvard.
Paper Metadata & Reference Export: Fetch detailed metadata by DOI, PMID, or arXiv ID (get_paper_metadata), and export reference lists in BibTeX, RIS, or plain text formats.
Search Cache Management: Search results are automatically cached in .paper_cache/ with a configurable TTL (default: 24 hours). Use cache_list to inspect and cache_clear to purge cached results.
Allows searching and downloading papers from arXiv, a preprint repository for scientific articles.
Allows searching papers from dblp, a computer science bibliography.
Allows searching for academic papers and discovering DOIs via Google Scholar.
Allows searching papers from HAL, an open-access archive for scientific documents.
Enables export of references in RIS format compatible with Mendeley reference manager.
Allows searching and retrieving paper metadata from PubMed, a biomedical literature database.
Allows searching papers via Semantic Scholar with metadata enrichment.
Allows searching papers from SSRN, a repository for social science and humanities preprints.
Allows searching papers from Zenodo, a general-purpose open-access repository.
Enables export of references in RIS and BibTeX formats for import into Zotero.
Click on "Install Server".
Wait a few minutes for the server to deploy. Once ready, it will show a "Started" state.
In the chat, type @ followed by the MCP server name and your instructions, e.g., "@scholar-toolkit-mcp search for papers on federated learning from arxiv"
That's it! The server will respond to your query, and you can continue using it as needed.
Here is a step-by-step guide with screenshots.
English | 中文
A comprehensive MCP toolkit for academic paper searching, manuscript processing, and citation management.
Multi-source search: arXiv, Semantic Scholar, PubMed, Crossref, OpenAlex, PMC, medRxiv, DBLP, Europe PMC, OpenAIRE, SSRN, IEEE, ACM
PDF download with automatic fallback (Unpaywall → OA repositories → Sci-Hub)
Text extraction from PDFs
SQLite-based local library
BibTeX/RIS export
Citation key generation
Author name auto-normalization (Surname, Given format)
Markdown citation placeholder replacement & reference list generation
Human review copy generation (cite_key → Author(Year) DOI)
Multiple citation styles: GB/T 7714-2015, APA 7th, IEEE
Writing templates
30 automated verification rules (R0-R9) with local/global scope
Chinese language enforcement
Citation format validation
Word count checking
Writing/final mode switching (chapter/draft/final)
Multi-model LLM scoring for citation accuracy
Incremental caching to avoid re-verification
Single-citation and full-manuscript batch verification
Related MCP server: Academic Paper MCP HTTP/SSE Server
pip install paper-toolkit-mcpAdd to your MCP client config:
{
"mcpServers": {
"paper-toolkit-mcp": {
"command": "paper-toolkit-mcp",
"env": {
"paper_toolkit_mcp_WORK_DIR": "/path/to/your/project"
}
}
}
}Note: Set
paper_toolkit_mcp_WORK_DIRto your project directory so thatpapers.db, downloads, and cache are stored there.
All sources work without API keys. Optional keys improve rate limits:
# Copy example and fill in available keys
cp .env.example .envSee .env.example for all available keys.
Tool | Description |
| Multi-source search (supports groups: medical/cs/metadata) |
| Get paper metadata by DOI (CrossRef + Semantic Scholar fallback) |
| Download PDF (source-native → OA repos → Unpaywall → Sci-Hub) |
| Download by citation key |
| Download and extract PDF text |
Tool | Description |
| Search local library |
| Get library statistics |
| Clear search cache |
Tool | Description |
| Process Markdown manuscript, replace citation placeholders & generate outputs |
| Get full metadata for a single paper |
| Batch export references (BibTeX/RIS/text) |
| Get writing template |
| Generate reference list from manuscript cite_keys |
| Generate human review copy (cite_key → Author(Year) DOI) |
Tool | Description |
| Initialize harness infrastructure |
| Verify manuscript against rules |
| List all rules (with scope and draft_skip markers) |
Tool | Description |
| Verify a single citation (multi-model LLM scoring) |
| Batch verify all citations in a manuscript |
| Check verifier configuration & model connectivity |
Rule | Category | Scope | Description |
R0 | Language | local | Chinese language enforcement |
R1 | Structure | local | Heading hierarchy, heading length, no lists/bold |
R2 | Data | local/global | P-value, mean±SD, statistics, data consistency |
R3 | Sections | global | Required chapters (intro/methods/results/discussion/conclusion) |
R4 | Terminology | local | Abbreviation consistency, humble phrasing |
R5 | Citations | local/global | cite_key format, density, total reference count |
R6 | Position | local | Citation placement, multi-citation format |
R7 | AI Trace | local | No colon in headings, no self-praise/back-reference, user comments |
R8 | Word Count | local/global | 3000-8000 words total, paragraph length, abstract length |
R9 | Tables/Figures | local/global | Three-line table, 300dpi, figure numbering |
Scope:
localrules can be checked by sub-agents on individual chapters;globalrules require the full merged manuscript. In draft mode, abstract word count (R8.3) and total reference count (R5.4) are automatically skipped.
# Install dev dependencies
pip install -e ".[dev]"
# Run tests
pytest
# Lint
ruff check paper_toolkit_mcp tests
# Type check
mypy paper_toolkit_mcpMIT
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