A side-by-side look at the AllMCPs Server and Pubmed MCP Server MCP servers: transport, auth, tools, quality signals, and the config to install either one in Claude, Cursor, Windsurf or VS Code.
Verdict: choose AllMCPs Server for aggregators work over a hosted endpoint; choose Pubmed MCP Server for biology, medicine and bioinformatics as a local process. You can also run both side by side in one mcpServers block.
ALLMCPS_MCP_URL.search_mcp_servers, get_mcp_install_config, recommend_mcp_stack.pubmed_search_articles, pubmed_fetch_articles, pubmed_fetch_fulltext.Rows where the two servers differ are marked.
| Spec | ||
|---|---|---|
| Category | Aggregators | Biology, Medicine and Bioinformatics |
| Quality signal | 85/100 · Excellent | 63/100 · Good |
| Install command | Confirmed | Confirmed |
| Transport | Remote HTTP/SSE | Local subprocess (stdio) |
| Auth | No auth required | Not declared |
| Pricing | Free | Not declared |
| Required env vars | ALLMCPS_MCP_URL | None listed |
| Verified owner | Verified | Community listing |
| GitHub stars | 4 | 161 |
| Directory activity | 59 views 20 installs 1 upvotes | 1 views 0 installs 0 upvotes |
| Tools | 11 | 11 |
| Full listing | View AllMCPs Server | View Pubmed MCP Server |
search_mcp_serversSearch the AllMCPs directory for Model Context Protocol (MCP) servers by keyword or category.get_mcp_install_configGet the exact claude_desktop_config.json setup snippet and documentation for a specific MCP server by ID.recommend_mcp_stackRecommend a curated multi-tool MCP server stack for a specific developer role or workflow (e.g. "fullstack", "data science", "devops").list_mcp_categoriesList all categories available in the AllMCPs directory along with server counts.get_boost_pricingGet pricing and features for boosting / featuring an MCP server on AllMCPs.com.boost_mcp_serverInitiate a sponsorship / boost order for an MCP server by ID, returning a Stripe checkout session URL and x402 invoice.get_boost_statusCheck current boost status, verified badge level, and sponsorship expiration for an MCP server by ID.submit_mcp_serverProgrammatically submit a new MCP server repository to AllMCPs.com for indexing and review. Supports the same optional enrichment fields as the human submission form — fill in whichever you can confidently determine from the repository (README, package.json, code) to produce a fully flushed-out listing. Omit anything you are not confident about rather than guessing; all enrichment fields are optional and unrecognized enum values are simply dropped, not rejected.verify_mcp_claimVerify ownership and claim an MCP server listing by checking GitHub README badge, website badge, or DNS TXT record. Works two ways: (1) fully unattended — pass `agentToken` from confirm_mcp_agent (or set an `Authorization: Bearer <token>` header if your client supports it), no human sign-in needed; or (2) if called with neither, requires the caller to already have an active AllMCPs browser session. Unattended agents should use register_mcp_agent + confirm_mcp_agent first.register_mcp_agentStart unattended-agent registration: emails a 6-digit confirmation code to the given address. Follow up with confirm_mcp_agent to exchange the code for a bearer token, which unlocks verify_mcp_claim (and future privileged tools) without ever needing a human to sign in via browser.confirm_mcp_agentExchange the 6-digit code emailed by register_mcp_agent for a durable bearer token (90-day TTL). Pass the returned token as `agentToken` on verify_mcp_claim, or set it as an `Authorization: Bearer <token>` header on subsequent MCP requests if your client supports that.pubmed_search_articlesSearch PubMed with full query syntax, structured filters, date ranges, and optional summariespubmed_fetch_articlesFetch article metadata by PMID: abstract, authors, journal, MeSH terms, grants, a collective author's investigators on request, linked retraction and correction noticespubmed_fetch_fulltextFetch full text by PMID, PMCID, or DOI, falling back from PMC to Europe PMC to Unpaywallpubmed_europepmc_searchSearch Europe PMC for preprints, patents, Agricola, and open-access records PubMed doesn't carrypubmed_europepmc_fetchFetch complete Europe PMC records, including the untruncated abstract, as `records: [{ source, epmcId }]pubmed_format_citationsFormat citations in APA 7th, MLA 9th, BibTeX, RIS, or Vancouver (ICMJE/NLM), with linked retraction and correction noticespubmed_find_relatedFind similar articles, citing articles, or references for a PMIDpubmed_spell_checkCorrect a misspelled PubMed query via NCBI ESpellpubmed_lookup_meshLook up MeSH headings with tree numbers, scope notes, and entry termspubmed_lookup_citationResolve partial references, up to 25 at a time, to PMIDs via ECitMatchpubmed_convert_idsConvert between DOI, PMID, and PMCID via the PMC ID ConverterPaste either block (or both) into your client config, e.g. claude_desktop_config.json or ~/.cursor/mcp.json. We only show a config when the install command is confirmed.
{
"mcpServers": {
"allmcps-server": {
"command": "npx",
"args": [
"-y",
"allmcps-server"
],
"env": {
"ALLMCPS_MCP_URL": "YOUR_ALLMCPS_MCP_URL_HERE"
}
}
}
}
{
"mcpServers": {
"pubmed-mcp-server-2": {
"command": "bunx",
"args": [
"@cyanheads/pubmed-mcp-server@latest"
]
}
}
}