"file system" matching MCP servers:

Works out a health plan from your own record: which screening is due and evidence-based suggestions with citations. Reads and writes one health-roadmap.json file on your machine; nothing is sent to a server.

Enables AI agents to retrieve cited pharmacogenomic and gene-variant information, including drug–gene guidance from CPIC/DPWG and rsID lookups, so responses can quote curated sources instead of relying on memory. A local package also lets users read raw DNA files on their own computer without sending the file data to the remote service.

Enables any MCP client to ask what a medical procedure costs at three Chicago hospitals and get back rows cited to each hospital's own published price file and provider registry data. Tools stay read-only and typed, returning provenance such as source file, SHA-256, effective date, and release tag with every result.

Enables querying the EMBL-EBI catalog of published polygenic scores through read-only tools that search scores, traits, publications, performance metrics, sample sets, cohorts, and releases, and that trace GWAS studies and resolve ontology and ancestry identifiers. It also lists and downloads the associated scoring-file and metadata files from the catalog's FTP site.

Upload your raw DNA file from 23andMe, AncestryDNA, MyHeritage, FamilyTreeDNA, or any VCF -- and watch a team of AI agents fan out across 16+ public genomics databases, share discoveries with each other in real time, and produce a comprehensive health report. Everything runs on your machine. Nothing is uploaded anywhere.

A TypeScript MCP server for interacting with CDISC Define-XML 2.0 and 2.1 files, enabling users to load, search, and retrieve clinical data metadata including datasets, variables, and codelists. It supports local file processing with document caching and provides responses in both JSON and Markdown formats.

Analyzes a consumer raw DNA file (AncestryDNA, 23andMe, MyHeritage, FTDNA, LivingDNA, VCF) entirely on the user's machine: Y and mtDNA haplogroups, traits, ClinVar scan, PharmCAT pharmacogenomics, and a plain-language report. Tools: analyze, summary, section, lookup, narrative_prompt/set_narrative, clinvar_findings, pharmacogenomics. Nothing is uploaded.

MCP server for connecting Claude Desktop to a local medical knowledge base with real-time file watching, enabling natural language interaction with medical documents.

Enables design-correct, conversational analysis of NHANES public-use data by automating file discovery, merging, weight selection, pooling, survey variance estimation, and mortality-linked Cox models.

Lets an AI agent list reports, start and poll exports, and look up insurance claims from a legacy system that has no API, with each server process serving only the tools and report types its role permits. Every tool call is written to an append-only, field-masked audit log, and the backend's login credentials stay in an encrypted vault the model never sees.

Enables searching, retrieving, and downloading protein structure data from the RCSB Protein Data Bank. Supports intelligent protein structure search, comprehensive data retrieval, and multiple file format downloads for bioinformatics research.

MCP server for Kenya health system — NHIF/SHA coverage, facility finder, community health workers, maternal health guidance, essential medicines.

A local-first, model-agnostic MCP server that stores personal health data in a SQLite file and provides analysis-ready views for any AI client to log, retrieve, and reason over health records.

Enables searching and retrieving EU/EEA clinical trial records from the Clinical Trials Information System, including trial status, sponsors, medicines, conditions, and authorisations.

Provides access to Allen Institute for Neural Dynamics (AIND) metadata and data assets through MongoDB queries, aggregation pipelines, NWB file exploration, and AI-powered data summaries.

Enables AI assistants to perform quality control analysis on high-throughput sequencing data using FastQC and MultiQC. It supports single-file and batch processing of FASTQ/FASTA files and generates comprehensive, interactive summary reports.

Exposes seven typed MCP tools that let clients screen lab results for delta checks, trends, HIL interference, implausible combinations and patient-based QC, retrieve results and patient trends, inspect the case review queue and evidence packets, check PBRTQC status, and file agent proposals for human approval. Every suspicious case is queued for pathologist review, and no tool ever releases, verifies or autoverifies a result.

Provides GPU-accelerated scientific computing capabilities including symbolic mathematics, quantum wave mechanics simulations, molecular dynamics, and neural network training through four specialized MCP servers.

Enables users to query and manage a medicine-access request file by checking status, owner, and due date, listing open requests, and updating owner or open/closed status. Provides spoken-safe payloads for MCP clients and Alexa.

Enables natural language control of quantum photonics experiments through the qudi framework. Supports safe instrument control, measurement execution, and safety system management with built-in runlevel protection and parameter validation.

Enables deterministic, non-invasive evaluation of respiratory system inertance, dynamic compliance, resonant frequency, and mechanical work of breathing through an MCP-compatible interface.

Enables interaction with a comprehensive healthcare management system through FastAPI, supporting operations for patients, doctors, appointments, medical records, telemedicine, lab orders, prescriptions, insurance claims, and more with JWT authentication.

Enables natural language interaction with the Labguru laboratory management system, providing 63 tools across experiments, protocols, inventory, and more.

Provides secure access to VA's VistA electronic health record system, enabling AI applications to retrieve and summarize patient medical records for clinical staff.

A production-grade MCP server that enables AI assistants to securely manage healthcare data through clinical tools for patient vitals, lab results, and medication ordering. It prioritizes security and compliance with features like HIPAA-ready audit logging, PII redaction, and role-based access control.

Read-only MCP server that lets any LLM query 34 reference APIs of the Japanese ORCA/WebORCA medical billing system, including patients, diseases, medical records, visits, billing, and master data. It is designed for safe, natural-language read access to ORCA data with no write operations.

Enables agents to compute Ocular Protection Index and tear film breakup dynamics from NIBUT, blink rate, and incomplete blink data, producing digital asthenopia risk scores and ergonomic microbreak and blink-coaching guidance for extended screen work.

Enables quantum systems analysis and simulation including quantum circuits, open quantum systems, quantum chemistry calculations, many-body physics, quantum machine learning, and quantum field theory computations.

Enables assessment of tear film breakup dynamics, Ocular Protection Index, blink behavior, and digital asthenopia risk during screen work, returning corneal exposure analysis and ergonomic microbreak/blink coaching recommendations.

Connects AI assistants to LabArchives electronic lab notebooks, enabling querying, semantic search, page navigation, and file uploads with provenance tracking.