Patterns for generating synthetic data for ML training, testing, and privacy. Covers LLM-based generation, tabular synthesis, and quality validation. Use when "synthetic data, generate training data, fake data generation, data augmentation, SDV, Gretel, test data, privacy-preserving data, " mentioned.
Patterns for protein structure prediction using AlphaFold2/ColabFold, structural analysis, model quality assessment, and integration with experimental data. Covers best practices and critical interpretation of prediction confidence metrics. Use when ", " mentioned.
The scientific method applied to computational research, data science, and experimental software engineering. Covers hypothesis formulation, experimental design, controls, reproducibility, and avoiding common methodological pitfalls like p-hacking, HARKing, and confirmation bias. Use when ", " mentioned.
Patterns for physics-based simulation including numerical integration, rigid body dynamics, fluid simulation, finite element methods, and multi-physics coupling. Covers accuracy, stability, and performance. Use when ", " mentioned.
Design and implement agent-based models (ABM) for simulating complex systems with emergent behavior from individual agent interactions. Use when "agent-based, multi-agent, emergent behavior, swarm simulation, social simulation, crowd modeling, population dynamics, individual-based, " mentioned.
Master the AI tools that accelerate research and information gathering. From market research to academic analysis, find insights faster and make better decisions. Use when "research, find information, academic papers, market research, competitive intelligence, fact check, research, information, analysis, academic, market-research" mentioned.
Design and implement Monte Carlo methods for uncertainty quantification, risk analysis, and probabilistic simulations across scientific and financial domains. Use when "monte carlo, random sampling, uncertainty quantification, risk analysis, stochastic simulation, MCMC, variance reduction, probabilistic, " mentioned.
Cross-session cognitive persistence via Neural Memory MCP. Captures decisions, patterns, errors, and insights with rich semantic links. Provides recall, hypothesis tracking, and evidence-based reasoning across projects.
A Principal Database Engineer interviewer. Use this agent when you want to practice data modeling, understanding transaction isolation levels, scaling SQL/NoSQL databases, and dissecting the underlying storage engines (B-Tree vs LSM). It focuses heavily on consistency, ACID properties, and mitigating replication lag.
Guide agents through structured research including planning, multi-query execution, source analysis, and synthesis. Use for comprehensive topic research, deep investigation, or creating research reports. Keywords: research, investigate, deep dive, comprehensive, analysis, synthesis, report.
Check if medicinal chemistry papers are in ChEMBL database to access curated bioactivity data
Use parallel subagents for large-scale paper screening and deep dive analysis
Synthesize findings from multiple research sources into coherent insights. Use when combining data from different sub-agents or research threads.
Data quality validation rules, quality metrics, and acceptance criteria for Somali dialect classifier datasets. Covers duplicate detection, language filtering, quality scoring, and validation protocols. Auto-invokes when discussing data quality, validation, cleaning, or quality guardrails for this project.
Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB), advanced BLAST workflows, structures, phylogenetics. For quick BLAST, use gget. For direct REST API, use pubmed-database.
Synthesize research findings for OAK planning using the oak.plan-research workflow. Use when consolidating findings from codebase exploration, comparing approaches, or creating research/*.md documents.
Analyzes events through chemistry lens using molecular structure, reaction mechanisms, thermodynamics, kinetics, and analytical techniques (spectroscopy, chromatography, mass spectrometry). Provides insights on chemical processes, material properties, reaction pathways, synthesis, and analytical methods. Use when: Chemical reactions, material analysis, synthesis planning, process optimization, environmental chemistry. Evaluates: Molecular structure, reaction mechanisms, yield, selectivity, safety, environmental impact.
Analyzes living systems and biological phenomena through biological lens using evolution, molecular biology, ecology, and systems biology frameworks. Provides insights on mechanisms, adaptations, interactions, and life processes. Use when: Biological systems, health issues, evolutionary questions, ecological problems, biotechnology. Evaluates: Function, structure, heredity, evolution, interactions, molecular mechanisms.
Deep symmetries and unifying principles — gauge theory, Lie groups, Noether's theorem, and the Standard Model. Constructs field theories from symmetry requirements, derives conservation laws, and traces force unification. Use when working with gauge symmetry, Lie groups (U(1), SU(2), SU(3)), conservation laws via Noether's theorem, the Higgs mechanism, or Standard Model structure.
Functions, categories, and information. How mathematical objects relate to each other — morphisms, entropy, signal processing.
Ultra-high density compression using mythological atoms and semantic shorthand for OCTAVE (Olympian Common Text And Vocabulary Engine). Preserves soul and constraints at 60% compression for identity transmission, binding protocols, and extreme token scarcity.
