Use when you have preprocessed MS/MS spectral data (normalized peak intensities and m/z values) in memory or on disk, a trained CNN model checkpoint available, and you ne — from…
Detect copy number variations from whole genome sequencing data and generate publication-quality genome-wide CNV plots.
True objective discovery through structured dialogue. 5 Whys analysis, JTBD (Jobs To Be Done), and 6-element structured prompting.
Initialize a new AI co-mathematician research project. Use when the user wants to start a new math research investigation with AI agent support, or types "/co-math-init", "start a…
Render a compact status view of an AI co-mathematician research project — goals, active workstreams, blocked items, pending reviews, recent decisions.
Validates code and provides physics reasoning for the 0-D CO2 lumped-parameter model for geothermal reservoirs.
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis. — from bg-szy/TOP-SKILLS
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
Constraint-based (COBRA) analysis of genome-scale metabolic models: FBA, FVA, knockouts, flux sampling, production envelopes, gapfilling, media optimization.
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
Install, update, version-check, or uninstall the Coco open-source AI workflow framework via its CLI (@coco-research/coco-cli, run with npx).
Expert game development with Cocos2d-x / Cocos Creator - node tree, components, rendering (OpenGL ES/Metal/Vulkan), physics (Box2D), audio, UI, multi-platform build, and…
Provides comprehensive guidance for Cocos2d-x v4 game engine including scene graph, nodes, sprites, actions, animations, physics, rendering, shaders, and platform deployment.
Write production-quality code from specs — reads requirements, researches patterns, implements with tests, and iterates until verification passes.
Create well-structured subagents for Claude Code with specialized expertise, proper tool configurations, and effective system prompts.
Codebase investigation methodology and catalog format. Load when surveying the codebase for bug investigation or pre-implementation research.
Use when starting technical work requiring structured approach - writing tests before code (TDD), planning data exploration (EDA), designing statistical analysis, clarifying…
Autonomous multi-agent code evolution system for optimization problems. Use when solving complex optimization problems (packing, geometry, scheduling, search) through evolutionary…
Mentor mode for learning-focused sessions. Guides the user through concepts, architecture, and hands-on experimentation using targeted code snippets — no full code generation.
Turn your code scan findings into search queries — research existing implementations before consulting an attorney. NOT legal advice.
Research open-source repositories to understand how something is built or works.
Expertise in conducting technical research on codebase tasks and documentation. Use when you need to understand existing implementations, trace data flows, or map codebase…
A cheaper sub-agent maps the code a task needs, saving the lead model's context and search tokens. Use before broad research in unfamiliar code; skip when a focused read or a…
Search GitHub for existing implementations of a topic. Use when the user wants to find code examples, libraries, or implementation patterns.
Deep codebase analysis to discover actual coding standards through statistical evidence. Use when analyzing naming conventions, import patterns, or detecting anti-patterns in…
Analyze codebase with tokei (fast line counts by language) and difft (semantic AST-aware diffs). Get quick project overview without manual counting.
Use when analyzing a codebase to select relevant files, build dependency maps, and extract architectural patterns for informed implementation planning
Answer architecture, design or implementation questions from code and history, grading the evidence for each answer.
Systematic codebase exploration following the Iron Law - understand the problem before exploring code. Four phases with file-finder and web-researcher agents.
Systematic codebase exploration following the Iron Law - understand the problem before exploring code. Four phases with file-finder and web-researcher agents.
Runs CodeClimate analysis on pull request diffs using the CLI engine and reports new issues inline. Calculates maintainability impact scores per changed file.
Tracks Code Climate maintainability scores over time using the Code Climate v1 API. Identifies technical debt hotspots, monitors churn-complexity coupling, and generates weekly…
Use when a solution needs a coherent structure before implementation or production for Software implementation and code architecture: Swift and iOS apps for API evolution — from…
Adversarial brainstorming. Claude and Codex independently research then debate until Nash equilibrium. For solution exploration, feasibility analysis, exhaustive enumeration.
Protocol-level two-agent paper writing workflow. Use when the user wants Codex to plan and review from global context while DeepSeek writes or revises the manuscript through the…
Delegiert Code-Review, Research-Synthesis, Adversarial-Cross-Check an Codex CLI (`codex exec`, `codex review`).
コードベースを分析し、詳細な実装計画を plan.md に作成する。新機能実装前、改修前、codex-research 後、"codex-plan", "codexで計画作成", "plan.mdを作って", "実装計画を作って" で使う。
Use Codex CLI sandbox mode to try risky changes safely. Isolated experimentation with network disabled and directory restrictions.
Investigate the @openai/codex-sdk API by first inspecting installed .d.ts typings in node_modules, then cloning and searching the github.com/openai/codex repo for source/docs.
Search the web using OpenAI Codex CLI to find current documentation, best practices, solutions, and technical information.
Python research assistant with Context7 MCP. Use for Python library research, evaluating packages, enforcing strict Python coding standards, or fetching up-to-date library docs…
Stay current with how OpenCode, OpenAI Codex, and Claude Code implement extensibility features (skills, slash commands, subagents, custom prompts).
Stay current with how OpenCode, OpenAI Codex, and Claude Code implement extensibility features (skills, slash commands, subagents, custom prompts).
Comprehensive coding agent SOTA reference from top teams. Contains architecture patterns, component blueprints, exact benchmark scores, actual system prompts, middleware code,…
Convene an internal "council" of distinct senior-engineer personas to analyze a problem, stress-test an approach, and produce an implementation plan before writing code —…
Use when after fitting a linear model to expression data using limma's lmFit function on a design matrix encoding experimental groups, inspect the resulting MArrayLM object to…
Use when after normalization of a metabolomic feature matrix but before statistical testing, when you have both QC (technical replicate) and non-QC (study) samples and need to…
Use when you have loaded raw NMR or MS metabolomic abundance data into a SummarizedExperiment object and need to assess feature reproducibility before downstream association…
Diagnose and fix broken LLM model configurations in CogniForge microservices. Use when: AI responses are empty, garbage, or missing LaTeX; reasoning-agent returns empty answers or…
Diagnose, build, and repair the CogniForge Math Pipeline — the LangGraph 3-node StateGraph that handles BAC math questions.
Apply cognitive science and HCI research to design decisions. Use when you need the scientific 'why' behind usability, explaining user behavior, understanding…
Context and memory optimization skill for AI agents. Use when working on long conversations, multi-step tasks, coding sessions, research workflows, refactors, and situations where…
Drafts cognovit promissory notes with confession of judgment provisions, gated by mandatory jurisdictional enforceability research, usury compliance, and statutory disclosure…
Use when meeting Cognitive Psychology (Elsevier) open-science expectations — sharing data, model code, analysis scripts, and materials so the modeling is reproducible, depositing…
Use when writing the response to a Cognitive Psychology (Elsevier) major/minor revision. Reviews here often demand added experiments, more model comparisons, recovery analyses, or…
Use when designing the experiments for a Cognitive Psychology (Elsevier) manuscript so they tightly control confounds, discriminate competing models, and have adequate power…
Use when building tables and figures for a Cognitive Psychology (Elsevier) manuscript. Exhibits here carry the experiment-to-model-fit argument — they should overlay model…