{
  "version": 1,
  "description": "Ada skill catalog — categories for 198 scientific skills",
  "categories": {
    "Genomics & Bioinformatics": {
      "description": "Single-cell analysis, gene expression, sequencing, genome databases",
      "skills": [
        "anndata", "arboreto", "biopython", "cellxgene-census", "deeptools",
        "dhdna-profiler", "ena-database", "ensembl-database", "gene-database",
        "geo-database", "gget", "gnomad-database", "gtars", "gtex-database",
        "gwas-database", "lamindb", "phylogenetics", "polars-bio", "pydeseq2",
        "etetoolkit", "pysam", "scanpy", "scikit-bio", "scvelo", "scvi-tools", "tiledbvcf"
      ]
    },
    "Drug Discovery & Chemistry": {
      "description": "Cheminformatics, molecular modeling, drug databases, docking",
      "skills": [
        "bindingdb-database", "chembl-database", "datamol", "deepchem",
        "diffdock", "drugbank-database", "glycoengineering", "matchms",
        "medchem", "molfeat", "molecular-dynamics", "pubchem-database",
        "pytdc", "rdkit", "rowan", "torchdrug", "zinc-database"
      ]
    },
    "Proteomics & Structural Biology": {
      "description": "Protein structure prediction, databases, sequence analysis",
      "skills": [
        "adaptyv", "alphafold-database", "esm", "interpro-database",
        "pdb-database", "string-database", "uniprot-database"
      ]
    },
    "Clinical & Health Sciences": {
      "description": "Clinical trials, patient data, health informatics, FDA databases",
      "skills": [
        "clinical-decision-support", "clinical-reports", "clinicaltrials-database",
        "clinpgx-database", "clinvar-database", "fda-database", "flowio",
        "histolab", "imaging-data-commons", "pathml", "pydicom", "pyhealth",
        "scikit-survival", "treatment-plans"
      ]
    },
    "Metabolomics & Biochemistry": {
      "description": "Metabolic pathways, enzyme databases, biochemical analysis",
      "skills": [
        "bioservices", "brenda-database", "cobrapy", "hmdb-database",
        "kegg-database", "metabolomics-workbench-database", "pyopenms",
        "reactome-database"
      ]
    },
    "Cancer & Disease Research": {
      "description": "Cancer genomics, disease databases, knowledge graphs",
      "skills": [
        "cbioportal-database", "cosmic-database", "depmap", "monarch-database",
        "opentargets-database", "primekg"
      ]
    },
    "Data Science & Machine Learning": {
      "description": "ML frameworks, data processing, statistics, explainability",
      "skills": [
        "aeon", "dask", "eli5", "exploratory-data-analysis", "networkx",
        "polars", "pymoo", "pytorch-lightning", "scikit-learn", "shap",
        "stable-baselines3", "statistical-analysis", "statsmodels",
        "sympy", "timesfm-forecasting", "torch-geometric", "transformers",
        "umap-learn", "vaex", "zarr-python"
      ]
    },
    "Finance & Economics": {
      "description": "Market data, economic indicators, financial analysis",
      "skills": [
        "alpha-vantage", "denario", "edgartools", "fred-economic-data",
        "hedgefundmonitor", "market-research-reports", "usfiscaldata"
      ]
    },
    "Physics & Quantum Computing": {
      "description": "Quantum circuits, physics simulation, astronomy",
      "skills": [
        "astropy", "cirq", "fluidsim", "pennylane", "pymatgen",
        "qiskit", "qutip", "simpy"
      ]
    },
    "Neuroscience": {
      "description": "Neural signal processing, brain imaging, neuropixel analysis",
      "skills": [
        "neurokit2", "neuropixels-analysis"
      ]
    },
    "Geospatial & Environmental": {
      "description": "Geographic data, mapping, spatial analysis",
      "skills": [
        "datacommons-client", "geniml", "geomaster", "geopandas"
      ]
    },
    "Visualization & Figures": {
      "description": "Charts, plots, scientific figures, infographics",
      "skills": [
        "generate-image", "infographics", "matplotlib", "plotly",
        "scientific-schematics", "scientific-visualization", "seaborn"
      ]
    },
    "Documents & Publishing": {
      "description": "PDF, Word, PowerPoint, LaTeX, markdown, slides, posters",
      "skills": [
        "docx", "latex-posters", "markdown-mermaid-writing", "markitdown",
        "paper-2-web", "parse-document", "pdf", "pptx", "pptx-posters",
        "scientific-slides", "scientific-writing", "venue-templates",
        "writing", "xlsx"
      ]
    },
    "Research Workflows": {
      "description": "Literature review, peer review, research methods, brainstorming",
      "skills": [
        "alpha-research", "autoresearch", "bgpt-paper-search",
        "citation-management", "consciousness-council", "deep-research",
        "hypothesis-generation", "literature-review", "open-notebook",
        "paper-code-audit", "paper-writing", "peer-review", "pyzotero",
        "replication", "research-grants", "research-lookup",
        "scholar-evaluation", "scientific-brainstorming",
        "scientific-critical-thinking", "scientific-workflows",
        "source-comparison", "what-if-oracle"
      ]
    },
    "Databases & Search": {
      "description": "Academic search engines, paper databases, web search",
      "skills": [
        "arxiv-database", "biorxiv-database", "crawl4ai",
        "jaspar-database", "openalex-database", "parallel-web",
        "perplexity-search", "pubmed-database", "semantic-scholar",
        "uspto-database"
      ]
    },
    "Lab Automation & Integration": {
      "description": "Lab equipment, LIMS, protocol management, cloud labs",
      "skills": [
        "benchling-integration", "dnanexus-integration",
        "ginkgo-cloud-lab", "iso-13485-certification",
        "labarchive-integration", "latchbio-integration",
        "omero-integration", "opentrons-integration",
        "protocolsio-integration", "pylabrobot"
      ]
    },
    "Infrastructure & Compute": {
      "description": "Docker, cloud compute, background jobs, session management",
      "skills": [
        "docker", "get-available-resources", "jobs", "matlab",
        "modal", "modal-compute", "offer-k-dense-web", "preview",
        "pufferlib", "runpod-compute", "session-log", "session-search",
        "setup", "watch"
      ]
    },
    "Bayesian & Probabilistic": {
      "description": "Bayesian modeling, probabilistic programming",
      "skills": [
        "hypogenic", "pymc"
      ]
    },
    "Reinforcement Learning": {
      "description": "RL frameworks and environments",
      "skills": [
        "pufferlib", "stable-baselines3"
      ]
    }
  }
}