Curator state

Recently surfaced

  • CovaSyn Chemistry MCP (added 2026-06-20) — com.covasyn/chemistry (MCP Registry v1.27.2, registered 2026-06-02; repo oliverkraft93-ops/covasyn-mcp-examples), a hosted streamable-HTTP cheminformatics MCP with 130+ deterministic tools across suites: covabasic (canonicalization/fingerprints/druglikeness), covachem (ADME/pKa), covatox (ICH M7 / CYP450), covams + covanmr (MS / 1D-2D NMR), covafold (protein/RNA folding), covabio (antibody/peptide/ADC), covaplatform (stability/DoE/docking/chromatography/retrosynthesis). Freemium — free tier 100 credits/week, Pro €250/mo, Unlimited €750/mo, Enterprise (GxP). Install: remote https://mcp.covasyn.com/mcp (API key) or the npx -y @covasyn/mcp-client stdio proxy (COVASYN_API_KEY + COVASYN_API_BASE=https://api.covasyn.com). Surfaced on the Chemistry directed pass; tagged Chemistry + Drug Repurposing and Discovery. Closes the long-deferred retrosynthesis/ADMET-wrapper gaps (single hosted server). The header-auth HTTP claude mcp add form is marked Unverified — since upstream only documents the npm stdio proxy.
  • Drug Repurposing (Claude Skill) (added 2026-06-14) — mims-harvard/ToolUniverse ships, alongside its MCP server (already catalogued at tooluniverse.md), ~68 discrete agent skills under skills/, installable via npx skills add mims-harvard/ToolUniverse. Surfaced on the Drug Repurposing and Discovery directed pass. Catalogued the tooluniverse-drug-repurposing skill (drug-repurposing.md, Apache-2.0) — five-phase target-/compound-/disease-driven repurposing workflow over Open Targets + ChEMBL + UniProt + Reactome/STRING, with disable-model-invocation: true (invoke explicitly). Requires the ToolUniverse MCP server registered first. Tagged Drug Repurposing and Discovery + Translational Medicine. Sibling drug-discovery skills deferred (see below).
  • Medidata Connector (added 2026-06-14) — medidata@anthropics/life-sciences, a Claude.ai Connector / Claude Code plugin wrapping Medidata’s hosted HTTP MCP server (https://mcp.imedidata.com/mcp). Two clinical-operations services: Platform Help (query Medidata Knowledge Hub docs for Rave EDC / Data Connect / Clinical Data Studio; iMedidata login) and Predictive Site Ranking (rank clinical-trial sites by predicted enrollment during protocol planning; Intelligent Trials subscription). Surfaced on the Translational Medicine directed pass via the anthropics/life-sciences marketplace, where the medidata/.claude-plugin/plugin.json now publishes a concrete HTTP install path — this resolves the long-standing deferred item (previously gated behind Medidata account onboarding with no install path). Tagged Translational Medicine.
  • SpikeLab (added 2026-06-14) — braingeneers/SpikeLab (MIT), a suite of computational-neuroscience agent skills for multi-electrode-array (MEA) spike-train data: spikelab-spikesorter (Kilosort2/Kilosort4/RT-Sort, unit curation, stim-aligned sorting, optional remote-Kubernetes offload), spikelab-analysis-implementer, spikelab-educator, spikelab-developer, spikelab-map-updater, plus a router skill. Skills ship inside the pip package at spikelab/agent/skills/ (pip install "spikelab[all]", copy into ~/.claude/skills/); an optional built-in MCP server is available via the mcp extra (its claude mcp add snippet is not published upstream — page marks the stdio form Unverified —). Surfaced on the Neuroscience directed pass; tagged Neuroscience. bioRxiv preprint 2026-04-25.
  • scmcphub single-cell MCP siblings (added 2026-06-13) — three sibling servers to the already-catalogued scanpy-mcp in the scmcphub ecosystem, surfaced on the Molecular and Cellular Biology directed pass: LIANA-MCP (scmcphub/liana-mcp, cell-cell communication over liana-py; tagged Immunology and Microbiology + Molecular and Cellular Biology), decoupler-MCP (scmcphub/decoupler-mcp, PROGENy pathway + CollecTRI TF activity; same tags), and CellRank-MCP (scmcphub/cellrank-mcp, cell-fate/trajectory via GPCCA; tagged Molecular and Cellular Biology). Each is pip install <pkg> → <pkg> run (stdio) / --transport shttp (HTTP), v0.4.0 (2025-06-27). License stated as BSD-3-Clause per the ecosystem (scmcp/scanpy-mcp confirmed BSD-3); per-repo LICENSE not separately confirmed — noted inline on each page.

Flagged for review

  • OpenClaw-Medical-Skills (FreedomIntelligence/OpenClaw-Medical-Skills) — flagged 2026-06-11 on a license contradiction, blocking batch ingest. The README markets it as “a curated collection of open-source medical and bioinformatics skills,” but (a) there is no LICENSE file in the repo, and (b) 185 of 449 SKILL.md files carry a per-file proprietary header: “All Rights Reserved. This code is proprietary and confidential. Unauthorized copying of this file, via any medium is strictly prohibited.” (© 2026 MD BABU MIA, PhD, MSSM — “Universal Biomedical Skills” project). The remaining ~59 carry OSI license lines and the rest none. Generating “Free / OSS” catalog pages over a collection that is partly all-rights-reserved would be inaccurate and is not done. Do not ingest until upstream publishes a single coherent repo license (or per-skill licenses we can read programmatically). Note: most of OpenClaw’s life-science surface (it shares many skill slugs with K-Dense/SciAgent — adaptyv, anndata, alphafold, arboreto, …) is already catalogued from the two cleanly-licensed collections, so the unique-coverage loss from deferring is small.
  • ChemCP (scottmreed/ChemCP) — catalogued 2026-06-13 but no LICENSE file is declared upstream; the page lists pricing as Free / OSS on the basis of the public npm package and marks the redistribution terms Unverified — inline. Revisit if upstream adds an explicit license, or downgrade the OSS claim if it turns out to be restricted.
  • allenbrain-mcp — upstream license unset; flagged 2026-05-20 before any redistribution.
  • biorxiv@life-sciences / clinical-trials@life-sciences plugins — flagged 2026-05-28; published in the anthropics/life-sciences marketplace per upstream commit e96556b but the backing mcp.deepsense.ai MCP host returns NXDOMAIN. No catalog entry created until the endpoint is restored.

Deferred — next-run priority

  • ToolUniverse sibling agent skills — mims-harvard/ToolUniverse/skills/ ships ~68 discrete Claude agent skills sharing the npx skills add mims-harvard/ToolUniverse install path (Apache-2.0). The tooluniverse-drug-repurposing skill was catalogued 2026-06-14 (drug-repurposing.md). Strong remaining drug-discovery candidates: tooluniverse-drug-research (drug reports with evidence grading), tooluniverse-drug-target-validation (10-dimension target validation), tooluniverse-drug-synergy, tooluniverse-drug-drug-interaction, tooluniverse-precision-oncology, tooluniverse-cancer-variant-interpretation, tooluniverse-rare-disease-diagnosis, tooluniverse-pharmacovigilance, tooluniverse-adverse-event-detection, tooluniverse-chemical-safety. Each requires the ToolUniverse MCP server. Surface 1–5 per future Drug Repurposing / Translational pass; do not bulk-create (soft cap).
  • biorxiv@life-sciences plugin — anthropics/life-sciences marketplace entry currently DOA (mcp.deepsense.ai NXDOMAIN per upstream issue #42 / commit e96556b). Revisit when upstream restores the endpoint.
  • clinical-trials@life-sciences plugin — same DOA status as biorxiv@life-sciences; distinct from both the adisinsight plugin (Springer Nature) and the clinicaltrials-gov-mcp community entry. Revisit when the endpoint is restored.
  • Retrosynthesis MCP — partly resolved 2026-06-20: CovaSyn Chemistry MCP (covasyn.md) now exposes a retrosynthesis tool in its covaplatform suite (hosted, freemium), so a Claude-installable retrosynthesis path exists. Open-source single-tool wrappers remain absent: no discrete MCP/Skill for AiZynthFinder / ASKCOS / IBM RXN located on the 2026-05-25 → 2026-06-20 Chemistry passes (AiZynthFinder v4 ships a Flask/JSON API and ASKCOS a FastAPI service, neither MCP-wrapped). Revisit if an OSS retrosynthesis wrapper ships.
  • MoziChem-MCP (sinagilassi/mozichem-mcp, PyPI mozichem-mcp, MIT) — chemical-engineering thermodynamics MCP bundle: EOS Models server (Peng-Robinson/SRK/RK/vdW, fugacity) and Flash Calculations server (VLE, bubble/dew point), uvx-launched stdio. Surfaced 2026-06-13 Chemistry pass. Deferred as adjacent-domain (chemical-engineering thermodynamics rather than life-science chemistry); if catalogued, it belongs under General-Purpose Utilities. Revisit if life-science recipes start reaching for it.
  • ZINC Database Skill (davila7/claude-code-templates, cli-tool/components/skills/scientific/zinc-database/SKILL.md) — installable scientific Claude Code skill over UCSF’s ZINC22 (~230M+ purchasable compounds; CartBlanche22 API). Partly resolved 2026-06-11: a ZINC15/ZINC22 query skill from SciAgent-Skills is now catalogued (zinc-database.md, Chemistry + Drug Repurposing and Discovery). The davila7/claude-code-templates variant remains a distinct alternative packaging; if its npx claude-code-templates@latest --skill path and SKILL.md tool list are later verified to followable-verbatim standard, fold them into zinc-database.md as an alternative install path rather than creating a second entry.
  • MCP_Vina (shogo-d-nakamura/MCP_Vina) — AutoDock Vina MCP server with dock_molecule / get_available_targets tools; currently single-target (AKT1 only) with uv-based local install. Surfaced on the 2026-06-01 Chemistry pass but deferred because the target list is too narrow to justify a catalog entry today; revisit once additional targets or a docking-grid-builder workflow lands upstream.
  • Ensembl MCP — munch-group variant (munch-group/ensembl-mcp) — still early-stage. The effieklimi/ensembl-mcp-server sibling was catalogued 2026-06-11 (ensembl.md), and the SciAgent Ensembl REST skill is folded into that same page as an alternative install path; one entry per data source already covers Ensembl, so the munch-group variant only warrants folding in as an alternative install path if it matures.
  • UCSC Genome MCP (hlydecker/ucsc-genome-mcp) — 12 tools over the UCSC Genome Browser API. The UCSC REST API is now catalogued as a SciAgent skill (ucsc-genome-browser.md); fold this MCP in as an alternative install path when verified.
  • NCBI Datasets MCP (Augmented-Nature/NCBI-Datasets-MCP-Server) — 31 tools over the NCBI Datasets API.
  • OpenFDA MCP — Augmented-Nature variant (Augmented-Nature/OpenFDA-MCP-Server) — broader drug+device+food openFDA wrapper (~16 tools incl. 510(k) clearances, MAUDE device events, recalls). Investigated 2026-06-06 but deferred: README not fetchable from the runner, LICENSE file unconfirmed (“standard licensing terms” only), exact tool list and registration snippet could not be verified to followable-verbatim standard. The drug-endpoint subset is now covered by the catalogued ythalorossy/openfda entry (openfda.md); revisit the device/food superset once the license and a copy-pasteable install snippet are confirmed from a primary source.
  • Azure FHIR MCP (erikhoward/azure-fhir-mcp-server) — Azure Health Data Services FHIR adapter.
  • AACT Clinical Trials MCP (navisbio) — read-only SQL over the CTTI AACT PostgreSQL mirror of ClinicalTrials.gov (70+ tables; list_tables / describe_table / read_query / append_insight); complementary to the v2-API clinicaltrials-gov-mcp entry. Re-investigated 2026-06-06 and still deferred: license reported inconsistently (MIT vs GPLv3 across directory listings) and the canonical repo/package path is ambiguous (navisbio/aact_mcp vs navisbio/mcp-server-aact, npm mcp-server-aact). Requires a free AACT account (DB_USER/DB_PASSWORD). Revisit once the LICENSE file and canonical package name are confirmed from the GitHub repo directly.
  • Augmented-Nature ChEMBL-MCP-Server — 22-tool community alternative to the official Anthropic ChEMBL connector; useful for users without marketplace access. Deferred because the first-party connector now covers the same surface.
  • easysolutions906 Healthcare MCP (@easysolutions906/mcp-healthcare) — 10-tool community bundle covering ICD-10, NPI, NDC, and DEA in a single server; complementary to the four discrete Anthropic Healthcare MCPs. Revisit on next Translational pass if users want a single-install alternative.
  • IEDB MCP wrapper — no Claude-installable wrapper for the IEDB Query API located on the 2026-05-26, 2026-06-02, or 2026-06-13 Immunology passes; the IEDB API exposes ~2.2M epitopes and ~6.8M assays (Nucleic Acids Research 2024 update) and remains a natural MCP candidate. Revisit on next Immunology-focus pass.
  • BCR/TCR repertoire MCP / Immcantation skill — no Claude-installable wrapper for Immcantation (Change-O / SHazaM / Alakazam / SCOPer / Dowser), nf-core/airrflow, VDJdb, or McPAS-TCR identified on the 2026-05-26, 2026-06-02, or 2026-06-13 sweeps. Immcantation 4.7.0-2026.01.21 and nf-core/airrflow are stable upstream — the gap is purely a missing skill/MCP wrapper. Revisit on next Immunology-focus pass.
  • Metagenomics / microbiome MCP — no discrete Claude-installable wrapper for QIIME2 / Kraken2 / MetaPhlAn located on the 2026-06-02 or 2026-06-13 sweeps. florensiawidjaja/BioinfoMCP (arXiv 2510.02139) can auto-convert these CLI tools into MCP servers but is a converter framework, not a discrete installable tool — out of scope per the same rule that excludes biocontext-ai/skill-to-mcp. Revisit if a pre-built metagenomics MCP (or a BioinfoMCP-published server bundle) ships.
  • BoltzGen Claude skill — the all-atom binder/nanobody/antibody design model HannesStark/boltzgen is itself out of scope (model weights + PyPI package, a research artifact). A third-party “BoltzGen Claude Code skill” is listed on mcpmarket.com but its upstream source repo / SKILL.md could not be located or verified on the 2026-06-13 Immunology pass (mcpmarket returned HTTP 429). Revisit if a verifiable Claude-skill wrapper with a primary source surfaces.
  • MDAnalysis (K-Dense Skill) — standalone trajectory-analysis sibling to the molecular-dynamics skill; may warrant its own entry only if the K-Dense collection ever ships a distinct mdanalysis SKILL.md directory (it currently does not — the trajectory analysis lives inside molecular-dynamics).
  • Cryo-EM MCP / Skill — no Claude-installable wrapper for RELION / cryoSPARC / CTFFIND located on the 2026-05-27, 2026-06-03, or 2026-06-13 Structural passes; cryoSPARC v5.0 (2026-01-27) and RELION remain CLI/GUI-only with no MCP/Skill wrapper. Revisit on next Integrative Structural and Computational Biology pass.
  • Foldseek Structure Search (Claude skill) — a “foldseek-structure-search” Claude Code skill is listed on mcpmarket.com (fast 3D structural-homology search across PDB / AFDB50 / SwissProt via local CLI or web API), but no verifiable upstream GitHub source / SKILL.md could be located on the 2026-06-13 Structural pass (mcpmarket returned HTTP 429; the slug does not map to a catalogued K-Dense or SciAgent skill). Revisit if a primary source surfaces; would fold cleanly alongside alphafold.md / pdb.md as a structure-search tool. (Foldseek itself: steineggerlab/foldseek, GPLv3.)
  • RFdiffusion / ProteinMPNN Claude Skill — protein-design model wrappers; standalone Claude Skill / MCP not located on the 2026-05-27 or 2026-06-03 sweeps. Both are bundled inside the longevity-genie/protein_hunter_mcp server (which also includes Boltz / Chai-lab / PyRosetta / LigandMPNN) — that server is a viable structural-biology entry once its install path is verified outside the longevity-genie organisation.
  • Boltz / Protein Hunter MCP (longevity-genie/protein_hunter_mcp, biomolecular-design-nexus/boltz_mcp) — Boltz2 structure / affinity prediction wrappers. Surfaced on the 2026-06-03 Structural pass but deferred — Boltz model weights are MIT but the protein_hunter_mcp install path requires uv + CUDA GPU and the upstream README does not yet publish a copy-pasteable claude mcp add snippet.
  • mne-neurophysiology-analysis — listed on mcpmarket.com/tools/skills/mne-neurophysiology-analysis but no verifiable upstream GitHub source / SKILL.md found via 2026-06-05 WebSearch (neither in K-Dense-AI/scientific-agent-skills nor in mne-tools org). Investigated on the 2026-06-05 Neuroscience pass and deferred until a primary source surfaces. Note: MNE-Python is now covered by the catalogued NeuroClaw mne-eeg-tool skill (mne-eeg-tool.md), so the gap is largely closed; if this specific mcpmarket listing resolves to a real repo, fold it in or add as a discrete entry as appropriate.
  • bendichter/dandi-query-mcp — TypeScript MCP server advertised as a “DANDI Archive query server” on Glama and Lobehub, but the published tool list is the boilerplate create_note / summarize_notes MCP template, not a DANDI-API wrapper; investigated on the 2026-06-05 Neuroscience pass and not added. DANDI semantic search and dandiset_info / dandiset_assets / dandi_list_neurodata_types are already covered by neurosift (Neurosift Tools MCP). Revisit only if upstream replaces the boilerplate tools with real DANDI-API tools.

User requests (open)

  • [#42 @goodb 2026-06-15] queue: catalog feedback-on=open-targets sentiment=got stuck author=@goodb issue=42

User requests (closed this run)

None.