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  • A
    license
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    An MCP server that enables single-cell RNA sequencing analysis through natural language, supporting data processing, visualization, and analysis tasks without requiring coding knowledge.
    52
    12
    BSD 3-Clause
  • A
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    maintenance
    Enables AI agents to control RELION 5.x cryo-EM structure determination software through natural language, providing 23 tools for the complete single-particle analysis pipeline.
    5
    MIT
  • A
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    quality
    D
    maintenance
    Provides chemical informatics endpoints for converting between chemical names and SMILES, processing molecule structures, and comparing molecules, with MCP compatibility.
    5
    MIT
  • F
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    maintenance
    Provides access to the AlphaFold Protein Structure Database with tools for structure retrieval, confidence analysis, batch processing, and visualization.
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  • F
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    Enables protein structure prediction using the Chai-1 model via Docker, with tools for small peptides, FASTA-based predictions, MSA-enhanced predictions, batch processing, and job management.
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  • F
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    Enables AI-powered protein structure prediction and variant analysis via Docker, with tools for submitting predictions, batch processing variants, and monitoring jobs.
    2
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  • A
    license
    A
    quality
    A
    maintenance
    Reads raw lab-instrument files (microscopy, mass spectrometry, chromatography, flow cytometry, NMR, electrophysiology, spectroscopy, plate readers, qPCR) without vendor software, returning metadata, images, spectra and traces as JSON. It also checks files for damage, runs common analyses, and exports to open formats such as OME-TIFF, OME-Zarr, mzML, Parquet and NWB.
    15
    Apache 2.0
  • A
    license
    A
    quality
    B
    maintenance
    A framework that integrates Brain-Computer Interface technology with the Model Context Protocol to enable real-time neural signal processing and AI-powered interactions for healthcare, accessibility, and research applications.
    12
    21
    MIT
  • A
    license
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    quality
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    maintenance
    MCP server for biopharma software infrastructure offering FDA 21 CFR Part 11 audit trails, CDISC SDTM/Allotrope data exports, 4PL dose-response curve fitting, and HIPAA PII/PHI redaction through 10 Zod-validated tools.
    10
    4 npm
    MIT
  • A
    license
    B
    quality
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    maintenance
    Enables running GROMACS molecular dynamics simulations through natural language, with tools for topology building, solvation, simulation management, and trajectory processing via the Model Context Protocol.
    31
    3
    MIT
  • A
    license
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    quality
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    maintenance
    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.
    MIT
  • F
    license
    Not graded
    quality
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    maintenance
    Enables RNA structure analysis, sequence evaluation, and inverse design using geometric deep learning models. Supports both quick computational analysis and long-running batch processing for generating RNA sequences that fold into target structures.
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  • F
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    quality
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    maintenance
    Enables protein stability prediction ($DeltaDelta$G and $Delta$Tm) and systematic mutation analysis using the SPIRED-Stab deep learning model. It supports single variant analysis, batch processing, and job monitoring via Docker-based inference.
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  • F
    license
    Not graded
    quality
    D
    maintenance
    Enables protein sequence analysis and structure prediction by extracting ESM-2 embeddings and batch processing FASTA files via Docker. It provides tools for large-scale embedding extraction, job monitoring, and model management within an MCP-compatible environment.
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