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"Tools or methods for generating 3D assets" matching MCP servers:

  • methods-mcp

    webwebb56
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    quality
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    Provides MCP tool adapters for Bioconductor methods like limma, DESeq2, and fgsea, enabling statistical analysis of omics data through containerized R execution. It serves as a bridge between MCP clients and bioinformatics tools for reproducible research workflows.
    Last updated
    Apache 2.0
  • FLASK-tools by FLASK-LLNL

    FLASK-toolsofficial

    FLASK-LLNL
    F
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    quality
    C
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    Provides a collection of MCP servers for computational chemistry tasks including molecular generation and retrosynthesis. Also offers property prediction and molecule pricing capabilities.
    Last updated

  • MOF Tools MCP Server

    liuyuxiang92
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    A specialized MCP server for Metal-Organic Framework research that provides tools for database searching, structural optimization, and energy calculations via ASE. It enables scientific workflows by allowing users to interact with MOF data and perform chemical simulations through a standard SSE interface.
    Last updated
    MIT

  • MolMIM MCP Server

    siarhei-fedziukovich
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    quality
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    Enables molecular generation, optimization, and analysis through NVIDIA MolMIM API. Supports generating drug-like molecules with desired properties, extracting molecular embeddings, and exploring chemical space around seed molecules.
    Last updated
    MIT

  • protein-mcp-server

    cyanheads
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    quality
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    maintenance
    A Model Context Protocol server providing programmatic access to 3D protein structural data from RCSB PDB, PDBe, and UniProt, enabling search, retrieval, comparison, and analysis of protein structures.
    Last updated
    212
    5
    Apache 2.0

  • mcp-alphafold

    pipeworx-io
    A
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    quality
    C
    maintenance
    Provides access to AlphaFold predicted protein 3D structures from EBI, enabling retrieval of prediction metadata, summaries, annotations, and UniProt data.
    Last updated
    18
    MIT

  • MCP-GMX-VMD

    egtai
    A
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    quality
    F
    maintenance
    Integrates GROMACS molecular dynamics simulations with VMD visualization, enabling setup, execution, analysis, and 3D visualization of molecular dynamics workflows through natural language.
    Last updated
    19
    MIT

  • uniprot-link

    berntpopp
    A
    license
    A
    quality
    A
    maintenance
    An 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 updated
    15
    MIT

  • pubmed-mcp-server

    cyanheads
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    license
    A
    quality
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    maintenance
    A bridge connecting AI agents to NCBI's PubMed database through the Model Context Protocol, enabling seamless searching, retrieval, and analysis of biomedical literature and data.
    Last updated
    10
    2,427
    121
    Apache 2.0

  • metadome-link

    berntpopp
    A
    license
    A
    quality
    A
    maintenance
    Enables querying of per-residue missense tolerance, Pfam domain annotations, and variant counts for human transcripts by wrapping the MetaDome web service. Provides MCP tools for resolving transcripts, requesting tolerance landscapes, and identifying constrained regions.
    Last updated
    11
    MIT

  • uniprot-mcp

    fzlzjerry
    A
    license
    A
    quality
    B
    maintenance
    MCP server that exposes the UniProt REST API to LLM clients, enabling search and retrieval of protein data via tools like search_uniprotkb, get_entry, and map_ids.
    Last updated
    7
    MIT