biorxiv-mcp-server

io.github.cyanheads/biorxiv-mcp-serverVersion 0.5.1

Search and retrieve bioRxiv and medRxiv preprints — by DOI, date interval, or keyword — via MCP.

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Responds605 msNov 14, 2026, 14:48 UTCAnswered our handshake without sign-in.

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Last checked: Nov 14, 2026, 14:48 UTC
Latency: 605 ms
Remotes responding: 1 of 1
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Hosting: Hosted outside the EU (detected)
Registry data as of: Nov 14, 2026, 22:14 UTC

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Connect

Streamable HTTP

https://biorxiv.caseyjhand.com/mcpResponds605 msNov 14, 2026, 14:48 UTC

No sign-in

Claude Code

claude mcp add --transport http biorxiv-mcp-server https://biorxiv.caseyjhand.com/mcp

Claude Desktop and claude.ai

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Settings > Connectors > Add custom connector
Name: biorxiv-mcp-server
Remote MCP server URL: https://biorxiv.caseyjhand.com/mcp

Cursor

{
  "mcpServers": {
    "biorxiv-mcp-server": {
      "url": "https://biorxiv.caseyjhand.com/mcp"
    }
  }
}

VS Code

code --add-mcp '{"name":"biorxiv-mcp-server","type":"http","url":"https://biorxiv.caseyjhand.com/mcp"}'

Streamable HTTP

npm: @cyanheads/biorxiv-mcp-server 0.5.1

Package only

npm (npx)

claude mcp add biorxiv-mcp-server -- npx -y @cyanheads/biorxiv-mcp-server@0.5.1

Streamable HTTP

npm: @cyanheads/biorxiv-mcp-server 0.5.1

Package only

npm (npx)

claude mcp add biorxiv-mcp-server -- npx -y @cyanheads/biorxiv-mcp-server@0.5.1

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Tools

7 tools

Tools of biorxiv-mcp-server
	Description		Read-only	Idempotent	Open world
`biorxiv_get_fulltext`Retrieve a preprint's full text as best-effort Markdown, extracted from its rendered HTML article page. Reads the latest version unless one is requested (the version input, or a vN suffix on the DOI), confirms it via the details API, then fetches and extracts the body — abstract, sections, inline citation labels, and the reference list. Table cells are not on the article page: each table appears as its caption, and omittedTables names it with the URL that serves its cells. bioRxiv and medRxiv share the 10.1101/ DOI prefix, so server="both" (the default) resolves the DOI against both in parallel and the response reports which server answered. This is HTML-to-Markdown extraction, not structured JATS: section structure is approximate and not guaranteed. Long articles exceed a single response, so use offset and limit to page through them (the response reports totalChars, remainingChars, and hasMore); paging is cheap because the extracted article is cached per version for an hour after the first read, so only the first chunk pays for a fetch. Not every preprint has an extractable HTML page — some are PDF-only and some origins block programmatic access — in which case a fulltext_unavailable error routes you to biorxiv_get_preprint for the title, metadata, and current abstract. For a preprint that has been published in a journal, the journal's version may have richer full text elsewhere.	Retrieve a preprint's full text as best-effort Markdown, extracted from its rendered HTML article page. Reads the latest version unless one is requested (the version input, or a vN suffix on the DOI), confirms it via the details API, then fetches and extracts the body — abstract, sections, inline citation labels, and the reference list. Table cells are not on the article page: each table appears as its caption, and omittedTables names it with the URL that serves its cells. bioRxiv and medRxiv share the 10.1101/ DOI prefix, so server="both" (the default) resolves the DOI against both in parallel and the response reports which server answered. This is HTML-to-Markdown extraction, not structured JATS: section structure is approximate and not guaranteed. Long articles exceed a single response, so use offset and limit to page through them (the response reports totalChars, remainingChars, and hasMore); paging is cheap because the extracted article is cached per version for an hour after the first read, so only the first chunk pays for a fetch. Not every preprint has an extractable HTML page — some are PDF-only and some origins block programmatic access — in which case a fulltext_unavailable error routes you to biorxiv_get_preprint for the title, metadata, and current abstract. For a preprint that has been published in a journal, the journal's version may have richer full text elsewhere.	Not declared	Yes	Not declared	Yes
`biorxiv_get_preprint`Fetch full metadata, the abstract, all revision history, JATS XML full-text links, and published-journal DOI for one or more preprints by DOI. Each DOI returns all revisions in one response, with the abstract on the latest revision only — the API keeps one abstract per preprint. Each call looks up the first 10 distinct DOIs and returns the rest, never looked up, in unprocessed[] — pass that list as dois in another call to continue; a repeated DOI is looked up once and an unparseable entry is reported in failed[], so neither counts toward the 10. When server="both" (default), each DOI is checked against both bioRxiv and medRxiv; the response includes which server the preprint was found on. Failed lookups are reported per-DOI in failed[] rather than aborting the batch, each carrying a reason (not_found, invalid_doi_format, upstream_unavailable, rate_limited) and a retryable flag; a rate_limited entry also carries the wait in seconds the origin asked for. preprints[], failed[], and unprocessed[] follow input order. DOIs must match the pattern 10.NNNN/…; a doi.org or article URL, a doi: label, and a trailing vN / .full suffix are stripped first, and results report the bare DOI.	Fetch full metadata, the abstract, all revision history, JATS XML full-text links, and published-journal DOI for one or more preprints by DOI. Each DOI returns all revisions in one response, with the abstract on the latest revision only — the API keeps one abstract per preprint. Each call looks up the first 10 distinct DOIs and returns the rest, never looked up, in unprocessed[] — pass that list as dois in another call to continue; a repeated DOI is looked up once and an unparseable entry is reported in failed[], so neither counts toward the 10. When server="both" (default), each DOI is checked against both bioRxiv and medRxiv; the response includes which server the preprint was found on. Failed lookups are reported per-DOI in failed[] rather than aborting the batch, each carrying a reason (not_found, invalid_doi_format, upstream_unavailable, rate_limited) and a retryable flag; a rate_limited entry also carries the wait in seconds the origin asked for. preprints[], failed[], and unprocessed[] follow input order. DOIs must match the pattern 10.NNNN/…; a doi.org or article URL, a doi: label, and a trailing vN / .full suffix are stripped first, and results report the bare DOI.	Not declared	Yes	Yes	Yes
`biorxiv_get_published_version`Resolve a DOI to its preprint-to-journal crosswalk record — preprint DOI, journal DOI, journal name, published date, and corresponding author details — from either side: a preprint DOI (10.1101/ or 10.64898/) finds the journal article it was published as, and any other DOI is read as a journal article's and finds the bioRxiv or medRxiv preprint it was posted as. Use when biorxiv_get_preprint shows a `publishedJournalDoi` and you need the journal details, or when you hold a journal article and want its preprint. bioRxiv and medRxiv share their DOI prefixes, so server="both" (the default) checks both in parallel and the response reports which server answered. When the crosswalk holds no record for a published preprint, the journal DOI still comes back from the preprint's own record, without journal name or date, and a notice says so. Returns a not-found error when no server holds the preprint, it lists no journal version, or no preprint is recorded for the journal DOI.	Resolve a DOI to its preprint-to-journal crosswalk record — preprint DOI, journal DOI, journal name, published date, and corresponding author details — from either side: a preprint DOI (10.1101/ or 10.64898/) finds the journal article it was published as, and any other DOI is read as a journal article's and finds the bioRxiv or medRxiv preprint it was posted as. Use when biorxiv_get_preprint shows a `publishedJournalDoi` and you need the journal details, or when you hold a journal article and want its preprint. bioRxiv and medRxiv share their DOI prefixes, so server="both" (the default) checks both in parallel and the response reports which server answered. When the crosswalk holds no record for a published preprint, the journal DOI still comes back from the preprint's own record, without journal name or date, and a notice says so. Returns a not-found error when no server holds the preprint, it lists no journal version, or no preprint is recorded for the journal DOI.	Not declared	Yes	Yes	Yes
`biorxiv_list_categories`List valid subject category strings for bioRxiv and medRxiv — the categories the listing API actually filters on. Use these strings as the `category` filter in biorxiv_list_recent to narrow results to a specific field; case, and "_" or "-" in place of a space, do not matter there. Run this tool before filtering to get the current valid values.	List valid subject category strings for bioRxiv and medRxiv — the categories the listing API actually filters on. Use these strings as the `category` filter in biorxiv_list_recent to narrow results to a specific field; case, and "_" or "-" in place of a space, do not matter there. Run this tool before filtering to get the current valid values.	Not declared	Yes	Yes	No
`biorxiv_list_published_versions`List preprints that appeared as journal articles within a journal publication-date interval, each with its journal DOI, journal name, publication date, and preprint metadata — the same record biorxiv_get_published_version returns for one DOI. The dates filter on journal publication, not preprint posting, so most rows were posted months or years earlier; use biorxiv_list_recent for preprints posted in an interval. `publisher`, a journal DOI prefix such as 10.7554 for eLife, limits the listing to the bioRxiv preprints published under it; those rows carry no journal name, authors, or abstract, and a prefix api.biorxiv.org does not recognize raises invalid_publisher. Returns `limit` publications per server (default 25, up to 100 — the page api.biorxiv.org serves; a larger limit returns 100 and says so). Continue at the `nextCursor` a page returns rather than stepping `cursor` by a fixed amount; `limit: 100` walks an interval in the fewest calls. When server="both" (default), per-server pagination state is returned separately, since one cursor can be past the end of one server and inside the other — to continue a single server, pass its `nextCursor` with `server` set to that server. One server failing under server="both" does not abort the call: the other server's page is still returned and the failed one is named in `failed[]`. Every attempted server failing raises a retryable upstream_unavailable (or rate_limited) error rather than an empty page. Abstracts are omitted by default to keep the page small — pass include_abstract: true for the whole page. Every preprintDoi, 10.1101/ and 10.64898/ alike, is accepted by biorxiv_get_preprint and the other DOI tools.	List preprints that appeared as journal articles within a journal publication-date interval, each with its journal DOI, journal name, publication date, and preprint metadata — the same record biorxiv_get_published_version returns for one DOI. The dates filter on journal publication, not preprint posting, so most rows were posted months or years earlier; use biorxiv_list_recent for preprints posted in an interval. `publisher`, a journal DOI prefix such as 10.7554 for eLife, limits the listing to the bioRxiv preprints published under it; those rows carry no journal name, authors, or abstract, and a prefix api.biorxiv.org does not recognize raises invalid_publisher. Returns `limit` publications per server (default 25, up to 100 — the page api.biorxiv.org serves; a larger limit returns 100 and says so). Continue at the `nextCursor` a page returns rather than stepping `cursor` by a fixed amount; `limit: 100` walks an interval in the fewest calls. When server="both" (default), per-server pagination state is returned separately, since one cursor can be past the end of one server and inside the other — to continue a single server, pass its `nextCursor` with `server` set to that server. One server failing under server="both" does not abort the call: the other server's page is still returned and the failed one is named in `failed[]`. Every attempted server failing raises a retryable upstream_unavailable (or rate_limited) error rather than an empty page. Abstracts are omitted by default to keep the page small — pass include_abstract: true for the whole page. Every preprintDoi, 10.1101/ and 10.64898/ alike, is accepted by biorxiv_get_preprint and the other DOI tools.	Not declared	Yes	Not declared	Yes
`biorxiv_list_recent`List preprints posted or revised within a date interval, optionally scoped to one server or a subject category. Returns 30 preprints per page (fixed by the API); pass `cursor` as an integer offset (0, 30, 60, …) to step through additional pages. Abstracts are omitted by default to keep the page small — pass include_abstract: true for the whole page (each row carries the latest-revision abstract of its preprint, whichever revision the row is), or call biorxiv_get_preprint (up to 10 DOIs per call) for a few. When server="both" (default), per-server pagination state is returned separately — use each server's `cursor` field for independent advancement. One server failing under server="both" does not abort the call: the other server's page is still returned and the failed one is named in `failed[]`, marking the result set as partial rather than complete. Every attempted server failing is a different case and does abort the call, with a retryable upstream_unavailable (or rate_limited) error — an empty page would otherwise be indistinguishable from an interval that genuinely holds nothing. Call biorxiv_list_categories for valid category strings; a server that answers a category filter with its unfiltered listing is left out with a notice, and invalid_category is raised when no server applied it. `funder` limits the listing to bioRxiv preprints funded by that organization, given its ROR ID; an ID api.biorxiv.org has no funder record for raises invalid_funder rather than returning an empty page.	List preprints posted or revised within a date interval, optionally scoped to one server or a subject category. Returns 30 preprints per page (fixed by the API); pass `cursor` as an integer offset (0, 30, 60, …) to step through additional pages. Abstracts are omitted by default to keep the page small — pass include_abstract: true for the whole page (each row carries the latest-revision abstract of its preprint, whichever revision the row is), or call biorxiv_get_preprint (up to 10 DOIs per call) for a few. When server="both" (default), per-server pagination state is returned separately — use each server's `cursor` field for independent advancement. One server failing under server="both" does not abort the call: the other server's page is still returned and the failed one is named in `failed[]`, marking the result set as partial rather than complete. Every attempted server failing is a different case and does abort the call, with a retryable upstream_unavailable (or rate_limited) error — an empty page would otherwise be indistinguishable from an interval that genuinely holds nothing. Call biorxiv_list_categories for valid category strings; a server that answers a category filter with its unfiltered listing is left out with a notice, and invalid_category is raised when no server applied it. `funder` limits the listing to bioRxiv preprints funded by that organization, given its ROR ID; an ID api.biorxiv.org has no funder record for raises invalid_funder rather than returning an empty page.	Not declared	Yes	Not declared	Yes
`biorxiv_search_preprints`Search preprints by keyword and/or author using EuropePMC for relevance ranking, then enrich matching DOIs with full bioRxiv/medRxiv metadata. Provide a keyword query, an author name, or both — author maps to an EuropePMC AUTH: field query and is ANDed with the keyword query. Covers both servers by default. EuropePMC indexes new preprints within 1–2 days of posting; for preprints posted within the last day, prefer biorxiv_list_recent. Abstracts are included by default; include_abstract: false omits them from every result for a response about a third the size, and biorxiv_get_preprint returns the abstract for up to 10 DOIs per call. A EuropePMC rate limit (HTTP 429) fails the call with a retryable rate_limited error carrying the wait in seconds — a rate-limited metadata enrichment does not, and instead marks the affected record enrichment_error: "rate_limited".	Search preprints by keyword and/or author using EuropePMC for relevance ranking, then enrich matching DOIs with full bioRxiv/medRxiv metadata. Provide a keyword query, an author name, or both — author maps to an EuropePMC AUTH: field query and is ANDed with the keyword query. Covers both servers by default. EuropePMC indexes new preprints within 1–2 days of posting; for preprints posted within the last day, prefer biorxiv_list_recent. Abstracts are included by default; include_abstract: false omits them from every result for a response about a third the size, and biorxiv_get_preprint returns the abstract for up to 10 DOIs per call. A EuropePMC rate limit (HTTP 429) fails the call with a retryable rate_limited error carrying the wait in seconds — a rate-limited metadata enrichment does not, and instead marks the affected record enrichment_error: "rate_limited".	Not declared	Yes	Not declared	Yes

Details

Registry status: Active
Published: Oct 29, 2026
Updated: Oct 29, 2026
Website: Not given
Repository: https://github.com/cyanheads/biorxiv-mcp-server⁠ (opens in a new tab)
Categories (suggested): Marketing and SEOSuggested categories are assigned automatically from the registry text and may be wrong. Verified operators can correct them.
GDPR: Not declared

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