Skills for grounding environmental and biological research variable names to appropriate ontologies using the Ontology Access Kit
Audit identifiers and namespaces for lexical-semantic and ontological correctness; output a Markdown report with actionable fixes.
Expert in aggregating, processing, and synthesizing information from multiple sources into coherent insights. Use when building knowledge graphs, ontologies, RAG systems, or extracting insights...
Use when designing database schemas, need to model domain entities and relationships clearly, building knowledge graphs or ontologies, creating API data models, defining system boundaries and...
This skill should be used when working with LaminDB, an open-source data framework for biology that makes data queryable, traceable, reproducible, and FAIR. Use when managing biological datasets...
This skill should be used when working with LaminDB, an open-source data framework for biology that makes data queryable, traceable, reproducible, and FAIR. Use when managing biological datasets...
This skill should be used when working with LaminDB, an open-source data framework for biology that makes data queryable, traceable, reproducible, and FAIR. Use when managing biological datasets...
Identify capability gaps and propose new skills with prioritization. Use when analyzing missing capabilities, planning skill development, performing ontology expansion, or assessing coverage.
This skill should be used when the user asks to "model agent mental states", "implement BDI architecture", "create belief-desire-intention models", "transform RDF to beliefs", "build cognitive...
This skill should be used when the user asks to "model agent mental states", "implement BDI architecture", "create belief-desire-intention models", "transform RDF to beliefs", "build cognitive...
This skill should be used when the user asks to "model agent mental states", "implement BDI architecture", "create belief-desire-intention models", "transform RDF to beliefs", "build cognitive...
Ouroboros task-resolution protocol: closed-loop reasoning, Fractal Pyramid (L0βL9), Four Pillars, and Ratchet termination.
Design and build knowledge graphs. Use when modeling complex relationships, building semantic search, or creating knowledge bases. Covers schema design, entity relationships, and graph database selection.
CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gene info (Ensembl/UniProt), AlphaFold, ARCHS4, Enrichr, OpenTargets, COSMIC,...
CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gene info (Ensembl/UniProt), AlphaFold, ARCHS4, Enrichr, OpenTargets, COSMIC,...
Fast CLI/Python queries to 20+ bioinformatics databases. Use for quick lookups: gene info, BLAST searches, AlphaFold structures, enrichment analysis. Best for interactive exploration, simple...
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Skills for extracting and processing variable names from ESS-DIVE datasets
Auto-applies MECE/BFO framework (thesis, Mermaid TD/LR, numbered sections, Ground Truth) to ANY .md file creation.
Guide for creating new GitHub repos and best practice for existing GitHub repos, applicable to both code and non-code projects