millimap-mcpofficial
A
licenseA
qualityC
maintenanceEnables Claude Desktop to read and drive analyses on the active MilliMap session, including datasets, clusters, annotations, and markers.
Last updated
12
MIT
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"Using Gemini in the Claude Desktop Application" matching MCP servers:
- AlicenseAqualityDmaintenanceEnables bioinformatics analysis through natural language conversations with Claude Desktop, automatically generating and executing Python scripts to produce HTML reports and visualizations.Last updated358MIT
- FlicenseBqualityDmaintenanceIntegrates the miEAA 3.x bioinformatics platform with Claude Desktop, enabling microRNA enrichment analysis, identifier conversion between miRBase versions, and miRNA-precursor transformations through natural language.Last updated4
- Alicense-qualityCmaintenanceAllows to retrieve information about an AnnData object via MCP using the read_lazy function from anndata.Last updated7MIT
- Alicense-qualityDmaintenanceAn MCP server for running local LLMs using llama-cpp-python, with built-in tools for generating drug-like molecule SMILES.Last updated3MIT
- Alicense-qualityDmaintenanceValidates the physical and chemical plausibility of ligand–protein docking poses using the PoseBusters tool.Last updated5BSD 3-Clause
- Alicense-qualityCmaintenanceEnables searching cryo-EM density maps in EMDB and raw datasets in EMPIAR, with filtering by resolution, keyword, and cross-referencing between the two databases.Last updatedMIT
- Alicense-qualityDmaintenanceRenders interactive 2D molecular structure diagrams from SMILES notation and computes molecular properties like molecular weight, LogP, and TPSA, directly in the chat.Last updated1101ISC
- Alicense-qualityCmaintenanceReproduces the in-silico toxicological profile of Heracleum sosnowskyi metabolites from Rassabina & Fedorov (2025) using open-source models for LD50 prediction, toxicity classification, chemical space clustering, and synthesis cost estimation.Last updatedMIT
- Flicense-qualityDmaintenanceBioOpenMCP enables users to run bioinformatics tools like FastQC, Cutadapt, and STAR with background execution and status checking. It integrates with Claude Desktop to perform quality control, trimming, alignment, and reporting via natural language.Last updated1
- Flicense-qualityDmaintenanceFramework for building bioengineering automation tools that AI assistants can call via the Model Context Protocol, handling server registration and tool discovery automatically.Last updated
- AlicenseAqualityAmaintenanceAn MCP server that grounds protein research in the UniProt SPARQL endpoint, providing tools for querying proteins, sequences, variants, diseases, and more via intent-named tools and raw SPARQL.Last updated15MIT
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- AlicenseAqualityAmaintenanceMCP server and Claude Plugin for a full ENCODE Project genomic data and analysis toolkit — search, download, track, and analyze functional genomics experimentsLast updated2013037AGPL 3.0
- AlicenseAqualityCmaintenanceProvides direct SQL access to a locally hosted Reactome database, enabling schema discovery, guarded read-only queries, and ergonomic helpers over the full relational schema.Last updated9MIT
- FlicenseAqualityCmaintenanceEnables analysis of bulk RNA-seq data using natural language queries, executing R and Python in a Docker container with automatic sample anonymization and privacy controls.Last updated7
- AlicenseAqualityBmaintenanceMCP server that provides tools for querying the Human Phenotype Ontology (HPO) including term lookup, hierarchy exploration, cross-ontology mappings, and gene-phenotype-disease associations, all grounded in a local SQLite database for fast offline lookups.Last updated17MIT
- FlicenseAqualityAmaintenanceAn MCP server that gives Claude access to NCBI Datasets v2 — search genome assembly metadata, retrieve taxonomy records, and download data packages without leaving your conversation.Last updated10
PDBe MCP Serversofficial
AlicenseAqualityAmaintenanceProvides seamless access to the Protein Data Bank in Europe (PDBe) API and search capabilities, enabling AI clients to query protein structures, perform advanced searches, and retrieve structural biology data.Last updated3336Apache 2.0- AlicenseAqualityBmaintenanceConverts natural language queries into Cypher queries against the NASA GeneLab Knowledge Graph, enabling AI-assisted analysis of spaceflight experiments and their biological effects.Last updated123BSD 3-Clause