"How to work with local files" matching MCP servers:

MyChart MCP Server

MCP server that provides local, de-identified access to a demo EMR database using a private LLM for de-identification, ensuring raw patient data stays local.

Grounds gene-nomenclature work in the HUGO Gene Nomenclature Committee (HGNC) dataset, enabling resolution of gene symbols and IDs to canonical HGNC identifiers, plus cross-references and batch operations.

Enables querying a synthetic patient dataset with tools to look up patients by ID, age, disease, name, and get statistics, connecting Claude Desktop to local data.

Offline MCP server for ICD medical code lookup, search, and crosswalk translation with 124K codes and 102K mappings, all local with zero network calls.

Enables AI coding agents to search and retrieve official CryoSPARC documentation with version awareness, using a local prebuilt index for safe and fast access.

Enables read-only interaction with DHIS2 health data by searching indicators and querying compact analytics results, designed for small local models.

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.

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 AI agents to query free biomedical and pharmaceutical APIs for clinical trials, drug data, molecular structures, adverse events, and research literature.

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.

A Model Context Protocol (MCP) server that enables AI agent access to Synapse entities such as Datasets, Projects, Folders, Files, Tables, and more.

MCP server for interacting with Galaxy bioinformatics platform, enabling AI assistants to connect to Galaxy instances, search and execute tools, manage workflows, and access other features.

Enables access to the IUPHAR/BPS Guide to PHARMACOLOGY database for querying drug targets, ligands, and pharmacological data without API keys.

Enables interaction with FHIR resources on Google Cloud Healthcare API through a SmartOnFHIR gateway secured by Firebase Auth, providing access to patient data, medical records, and medical research tools like PubMed.

Enables MCP clients like Claude Desktop to interact with openEHR REST APIs (EHRbase) for creating compositions, managing EHRs, listing templates, and executing AQL queries.

MCP-native scientific skills for reproducible computational biology and AI-driven drug-discovery workflows. It combines deterministic scientific tools with an MCP server to give AI agents real computational capabilities.

MCP server for querying the GWAS Catalog (EBI/NHGRI), a curated catalog of genome-wide association studies. It enables AI agents to search and retrieve study data via natural language or direct tool calls.

A local FastMCP server that enables searching and reviewing Turkish health and dental clinic promotional content against regulatory sources, with tools for source management and AI-assisted analysis.

Enables AI agents to query the PomBase fission yeast model-organism database for genetic and molecular data through the Pipeworx MCP gateway.