Tag: biomedical

166 research skills maintained by K-Dense (formerly Claude Scientific Skills), spanning bioinformatics, cheminformatics, clinical research, materials and physics, including unified access to 78 public databases such as PubChem and UniProt. Works with Claude Code, Codex and Cursor.

Unified database lookup skill from K-Dense's scientific collection: reproducibly queries about 80 public database APIs such as PubChem, UniProt, ChEMBL, ClinicalTrials.gov and FRED, returning traceable results with endpoints, parameters and count checks. Some need API keys.

Teaches agents standard single-cell RNA-seq analysis with Scanpy: QC, normalization, PCA/UMAP, clustering, differential expression and plots, with ready-to-run pipeline scripts and guidance on converting Seurat and other R objects to h5ad. Needs Python 3.12+; by K-Dense.

For preclinical life sciences research: bundles MCP connectors for PubMed, bioRxiv, ChEMBL, Open Targets, ClinicalTrials and more, plus analysis skills for single-cell RNA QC, scvi-tools and nf-core pipelines. Official from Anthropic; some data sources need accounts.

Open-source research agent: one command runs literature reviews, deep research, paper reviews, paper-code consistency checks and replication plans, searching arXiv, PubMed and more with sources recorded. Good for grad students writing reviews. Run feynman setup to sign in to a model provider.

OpenAI's official Codex plugin with about 50 skills that route questions to genetics, omics, pathway, protein structure, chemistry and clinical evidence sources, can split the work across parallel subagents, and synthesize sourced conclusions.

OpenAI's official life-science skills: 49 skills query public databases such as UniProt, ClinVar, gnomAD and AlphaFold through Python scripts, with a router skill that breaks down questions, normalizes entities and compiles sourced evidence. Written mainly for Codex.

OpenAI's official Codex plugin that guides sequencing analysis from BCL/FASTQ: QC, RNA-seq differential expression, single-cell, variant calling and metagenomics, favoring nf-core and other public pipelines with reproducible run logs. Checks for local tools first. Research use only.

About 40 research skills from Google DeepMind: search arXiv, PubMed and OpenAlex, query UniProt, PDB, ClinVar, ChEMBL and more, run AlphaGenome variant analysis and render structures in PyMOL. Requires uv; AlphaGenome needs an API key, and keys raise limits for OpenAlex, ClinVar and others.

869 medical skills compiled by FreedomIntelligence from a dozen open-source libraries: SOAP notes, discharge summaries, drug interactions, clinical guidelines, PubMed/FDA lookups, genomics and device regulation. Made for OpenClaw, usable elsewhere; some need API keys. Doctors must review output.

550+ medical research skills from AIPOCH: PubMed search strategy, study design and sample size, statistics and bioinformatics, journal writing and reviewer responses, all vetted by MedSkillAudit. Some need Python/R or database credentials; have researchers and clinicians review results.

From Harvard Medical School's Zitnik Lab: one MCP connecting 1,000+ scientific tools and databases for drugs and targets, genes and proteins, clinical trials, FDA data and PubMed, for biomedical and drug research. Runs with uv; some sources need API keys; medical conclusions need expert review.

Searches about 30 biomedical sources, including PubMed, ClinicalTrials.gov, ClinVar and OncoKB, with one command syntax, covering literature, clinical trials, genetic variants, drugs and pathways. Ships as both a CLI and an MCP server.

Anthropic's official life sciences plugin marketplace: install MCP plugins such as PubMed, BioRender, Synapse, ChEMBL and 10x Genomics, plus research skills for single-cell RNA QC, Nextflow pipelines and scvi-tools. Some data sources need an account or subscription.

PubMed plugin from Anthropic's life sciences marketplace: connects to the US National Library of Medicine's remote MCP to search biomedical literature and research papers. No account needed.

Official BioRender plugin in Anthropic's life sciences marketplace: connects Claude Code to BioRender's scientific icons, templates and figures to find assets and make paper figures, lecture slides and talk graphics. Needs a free BioRender account; authorize it in /plugin after installing.

Anthropic's official healthcare plugin for the US system: extract data from clinical notes, assign ICD-10 and CPT/HCPCS codes, review prior auths, screen for fraud and draft trial protocols, with hosted CMS, NPI and PubMed connectors. FHIR access needs API rights; clinicians must review.

59 clinical research skills from a radiologist at Korea's Asan Medical Center: study design and sample size, de-identification, statistical figures, 49 reporting guidelines, risk-of-bias checks, citation verification and reviewer replies. Literature APIs need no key. Medical review required.

Runs locally with no API key: looks up drug labels and adverse events from FDA, EMA and DailyMed, plus WHO health statistics, PubMed papers, clinical trials and clinical guidelines, with auto-generated evidence-level tags on papers. Needs Node.js. Have a doctor or pharmacist verify results.

Connects to PACS and other DICOM servers: query images by patient, study and series, read text from PDF reports embedded in DICOM, and forward series to AI nodes such as segmentation. Needs uv and a YAML config. Not for clinical use or real patient data (per the author).

Searches 600,000+ studies registered on ClinicalTrials.gov, shows protocols and posted results (efficacy, adverse events), and matches patients to recruiting trials by age, sex, condition and location. Public data, no API key; needs Node.js 24+. Unofficial; results must be reviewed by a doctor.

42 official AWS skills for healthcare and life sciences: medical coding and terminology mapping, FHIR/HL7 parsing, claims and prior authorization rules, medical imaging, pharmacoepidemiology and genomics, per US standards. Some need local software. Not for clinical decisions; expert review required.

SNOMED International's official MCP: search and validate SNOMED CT terms, browse concept hierarchies and expand value sets in the International, US, UK, Australian and other editions. Hosted, no account. Unlicensed use is evaluation only, not for coding records. Clinicians should review.