Mychart vs Pubmed MCP Server
A side-by-side look at the Mychart 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 Mychart for biology & bioinformatics work as a local process; choose Pubmed MCP Server for biology & bioinformatics as a local process. You can also run both side by side in one mcpServers block.
Which MCP server should you choose?
Choose Mychart when
- You need dedicated capabilities in the Biology & Bioinformatics domain.
- You prefer a local stdio subprocess transport.
- You want tools like
mychart_set_provider, mychart_login, mychart_session_status.
Choose Pubmed MCP Server when
- You need dedicated capabilities in the Biology & Bioinformatics domain.
- You prefer a local stdio subprocess transport.
- You want tools like
pubmed_search_articles, pubmed_fetch_articles, pubmed_fetch_fulltext.
Feature & specification comparison
Rows where the two servers differ are marked.
| Spec | ||
|---|---|---|
| Category | Biology & Bioinformatics | Biology & Bioinformatics |
| Quality signal | 53/100 · Good | 63/100 · Good |
| Install command | Confirmed | Confirmed |
| Transport | Local subprocess (stdio) | Local subprocess (stdio) |
| Auth | Not declared | Not declared |
| Pricing | Not declared | Not declared |
| Required env vars | None listed | None listed |
| Verified owner | Community listing | Community listing |
| GitHub stars | 0 | 163 |
| Directory activity | 2 views 0 installs 0 upvotes | 3 views 0 installs 0 upvotes |
| Tools | 8 | 11 |
| Full listing | View Mychart | View Pubmed MCP Server |
Tools & capabilities
Mychart tools 8
mychart_set_providerSet your health system's MyChart URL (one-time). Paste any URL from their MyChart site.mychart_loginOpens a visible browser window; you sign in + complete MFA there.mychart_session_statusCheck provider config + whether the saved session is still valid.mychart_list_test_resultsList ALL test results (auto-expands "Show more"), with ids `r1, r2, ...`.mychart_get_test_resultFull readable content of one result (values, ranges, comments).mychart_download_test_resultSave a result as PDF to `~/.mychart-mcp/downloads`.mychart_screenshotDebug: full-page PNG of what the automation browser sees.mychart_close_browserClose the browser process (session stays saved on disk).
Pubmed MCP Server tools 11
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 Converter
Ready-to-paste client configs
Paste 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.
Mychart
{
"mcpServers": {
"mychart": {
"command": "npx",
"args": [
"mychart-mcp-server"
]
}
}
}
Pubmed MCP Server
{
"mcpServers": {
"pubmed-mcp-server-2": {
"command": "bunx",
"args": [
"@cyanheads/pubmed-mcp-server@latest"
]
}
}
}
Frequently asked questions
Mychart is categorized under Biology & Bioinformatics and uses a local stdio subprocess. Pubmed MCP Server belongs to Biology & Bioinformatics and uses a local stdio subprocess. Pick Mychart for biology & bioinformatics work and Pubmed MCP Server for biology & bioinformatics.
Copy the mcpServers block from the config section on this page into your client's config (for example claude_desktop_config.json or ~/.cursor/mcp.json), then fully restart the client.
Mychart has no declared pricing — check the project's own site. Pubmed MCP Server has no declared pricing — check the project's own site. If a server needs environment variables such as API keys, define them under the env key in your client's MCP config.
Yes. MCP clients support multiple servers: add mychart and pubmed-mcp-server-2 as separate keys in the same mcpServers object, and your assistant will call tools from either one.
On AllMCPs, Mychart has a quality signal of 53/100 (Good) with 2 views, 0 installs and 0 GitHub stars. Pubmed MCP Server has 63/100 (Good) with 3 views, 0 installs and 163 GitHub stars.