Research, academic papers, education, and exam prep (4.2K skills)
Plan and execute reproducible computational research with explicit inputs, environments, provenance, deterministic steps, validation, and workspace outputs. Use for analyses that must be rerun, audited, or handed to another researcher.
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Creative research ideation and exploration. Use for open-ended brainstorming sessions, exploring interdisciplinary connections, challenging assumptions, or identifying research gaps. Best for early-stage research planning when you do not have specific observations yet. For formulating testable hypotheses from data use hypothesis-generation.
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Train neural operators (FNO, DeepONet) to learn solution maps for parametric PDE families. Once trained, solve new PDE instances in milliseconds. Use when you need to solve many instances of the same PDE with different parameters/ICs/BCs.
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UMAP dimensionality reduction. Fast nonlinear manifold learning for 2D/3D visualization, clustering preprocessing (HDBSCAN), supervised/parametric UMAP, for high-dimensional data.
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Dereplicate a putative natural product and assign its chemical taxonomy. Use to answer "is [compound] a known natural product", "what microbe/organism produces [compound]", "what chemical class is [compound]", "dereplicate this metabolite (by formula/exact mass/InChIKey/SMILES)", or "classify this molecule into ChemOnt". Searches NPAtlas for known microbial natural products (producing organism + literature reference), assigns the ChemOnt kingdom→superclass→class→subclass hierarchy via ClassyFire, resolves systematic IUPAC names to structure via OPSIN, and cross-references identity in PubChem. NOT for general drug/compound identity or ADMET (use tooluniverse-chemical-compound-retrieval / tooluniverse-small-molecule-discovery) and NOT for metabolomics pathway/enrichment analysis (use tooluniverse-metabolomics skills).
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Pharmacogenomics (PGx) research — drug-gene interactions (CPIC, PharmGKB), CPIC dosing guidelines, variant-drug-response associations, ethnic-allele-frequency considerations, and metabolizer-status scoring. Use for PGx-informed dosing recommendations, CYP/HLA pharmacogenomic allele interpretation, and clinically-actionable PGx report generation.
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Machine learning in Python with scikit-learn. Use when working with supervised learning (classification, regression), unsupervised learning (clustering, dimensionality reduction), model evaluation, hyperparameter tuning, preprocessing, or building ML pipelines. Provides comprehensive reference documentation for algorithms, preprocessing techniques, pipelines, and best practices.
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Metabolomics research — metabolite identification, study analysis, and database searches across HMDB, MetaboLights, Metabolomics Workbench, KEGG. Use for annotating mass-spec features to known metabolites, finding metabolomics studies of a disease, and structured metabolomics research reports with metabolite-pathway mapping.
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KEGG-based disease-drug-variant network research. Connects diseases to causal genes, drugs to molecular targets, and variants to pathways using KEGG's editorially curated databases (KEGG Disease, Drug, Network, Variant, Pathway). Use for drug repurposing via shared pathways, mechanistic disease-gene-drug networks, and pathway-based target discovery. Distinguishes direct (binding) vs indirect (pathway co-membership) drug-target relationships.
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Comprehensive drug profiling — mechanism, primary/secondary targets, drug interactions, clinical-trial status, adverse events (FAERS), pharmacogenomics, and approval history. Use for full drug investigation reports, 'tell me about drug X' queries, and assembling drug profiles for clinicians, researchers, or regulatory work.
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Trace drug mechanism of action — primary target → downstream signaling → pathway perturbation → tissue/organ effect → clinical outcome. Uses DrugBank, ChEMBL, KEGG, Reactome, STRING. Use for understanding how a drug works, identifying off-target effects, mechanism-based combination therapy design, and writing mechanism sections of reports.
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Drug regulatory and approval research — FDA substance registry, ATC/EPC classification, EMA decisions, generic-drug status, FDA Orange Book exclusivity, NDA/BLA pathways. Use for jurisdiction-aware approval status (FDA vs EMA), generic vs brand availability, exclusivity expiry tracking, and regulatory pathway selection. Always specifies the market when reporting status.
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Literature: retrieve document-level scientific evidence from publications, clinical-trial registries, and patent sources. Use for PubMed records, reproducible searches, trial registrations, patent evidence, abstracts, study metadata, stable identifiers, and citation provenance.
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Iterative lead optimization with analyze-reason-generate-verify-evaluate loop. Paper-backed (MT-Mol, DrugR, MultiMol).
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Investigate errors, incidents, or product ideas using both internet research and repo-wide codebase research, then propose a concrete changeset plan with clarifying questions before any implementation. Use when a user asks to investigate, root-cause, or plan changes, or when an Issue or PR is referenced and needs a plan.
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Push the LLM to reconsider, refine, and improve its recent output. Use when user asks for deeper critique or mentions a known deeper critique method, e.g. socratic, first principles, pre-mortem, red team.
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Fetch external documents linked in SCF submissions — Google Docs, Google Drive PDFs, GitHub, Notion, IPFS. Use when a submission links to an architecture doc, whitepaper, or technical spec hosted externally. Handles URL transformation for Google services.
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Explain and control the stellar-build learning loop — the system that improves your skills from how you use them. Use when the user says "learning loop", "how does the learning loop work", "what is the learning loop", "self-improving skills", "stellar-loop", "show my skill usage", "is tracing on", or wants an overview / status of the local trace-capture + optimize + bench cycle.
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Research customer pain points, trends, and competitors through the OMA market engine. Use for market discovery or voice-of-customer analysis.
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Search academic literature and generate, validate, or compare Knows paper sidecars. Use for claim/evidence analysis and literature synthesis.
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Machine Learning integration for Flutter using TensorFlow Lite and Firebase ML
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Apply AI to market research. TRIGGERS - Use when user needs help with ai-market-research related tasks.
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Build AI market research systems. TRIGGERS - Use when user needs help with ai-market-researcher related tasks.
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Build AI tutoring systems with adaptive learning. TRIGGERS - Use when user needs help with ai-education-tutor related tasks.
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