Research

Master metaphysics and ontology - the study of being, existence, and fundamental reality. Use for: existence, being, substance, identity, causation, modality, time, universals. Triggers: 'ontological', 'metaphysical', 'what exists', 'substance', 'essence', 'existence', 'being', 'identity', 'persistence', 'causation', 'modality', 'possible worlds', 'universals', 'particulars', 'properties', 'abstract objects', 'time', 'change', 'composition'.

Master dialectical methodology - Socratic, Hegelian, and Marxist dialectics. Use for: dialogue, thesis-antithesis-synthesis, contradiction, development. Triggers: 'dialectic', 'dialectical', 'thesis antithesis', 'Aufhebung', 'sublation', 'Socratic', 'Hegelian', 'contradiction', 'synthesis', 'negation', 'development', 'elenchus'.

Reconstruct, visualize, and analyze argument structure. Use for: argument reconstruction, premise identification, inference evaluation, finding hidden assumptions, visualizing debates, Toulmin model analysis. Triggers: 'argument structure', 'premises', 'conclusion', 'inference', 'reconstruct', 'map the argument', 'Toulmin', 'argument diagram', 'validity', 'soundness', 'implicit premise', 'hidden assumption', 'logical structure'.

Conduct deep academic research for philosophy, neuroscience, cognitive science, and theoretical computer science (computability, complexity, AI theory, logic). Use when user asks to: research academic topics, find scholarly papers, conduct literature reviews, analyze citations, synthesize research findings, explore philosophical arguments, investigate consciousness/cognition, study computability/decidability/Turing machines, or analyze academic debates. Triggers on: 'research papers', 'litera...

Research-First design methodology using Refero MCP. Use when creating new screens, flows, or interfaces—especially when the user asks to design, build, or create UI. Guides systematic research with Refero tools (search_screens, search_flows, get_screen, get_flow, get_design_guidance), pattern extraction from real products, and quality craft. Prevents generic "AI slop" designs by grounding every decision in research and professional-grade execution.

Semantic search, similar content discovery, and structured research using Exa API

Automated hypothesis generation and testing using large language models. Use this skill when generating scientific hypotheses from datasets, combining literature insights with empirical data, testing hypotheses against observational data, or conducting systematic hypothesis exploration for research discovery in domains like deception detection, AI content detection, mental health analysis, or other empirical research tasks.

Typst 学术论文助手（支持中英文论文、会议/期刊投稿）。 领域：深度学习、时间序列、工业控制、计算机科学。 触发词（可独立调用任意模块）： - "compile", "编译", "typst compile" → 编译模块 - "format", "格式检查", "lint" → 格式检查模块 - "grammar", "语法", "proofread", "润色" → 语法分析模块 - "long sentence", "长句", "simplify", "拆解" → 长难句分析模块 - "academic tone", "学术表达", "improve writing" → 学术表达模块 - "translate", "翻译", "中译英" → 翻译模块 - "bib", "bibliography", "参考文献" → 参考文献模块 - "deai", "去AI化", "humanize", "降低AI痕迹" → 去AI化编辑模块 - "template", "模板", "IEEE", "ACM" → 模板配置模块

学术论文全流程质检工具，支持全局检查和7个部分的专项审查（标题/摘要/引言/方法/结果/讨论/结论），适用于Gemini和Codex CLI

High-impact scientific manuscript preparation for journals like Nature, Blood, Cell. Use when writing abstracts, introductions, methods, results, discussions, or figure legends. Includes citation management, statistical reporting standards, ICMJE guidelines, and journal-specific formatting for hematology/oncology publications.

Preprocess small RNA sequencing data with adapter trimming and size selection optimized for miRNA, piRNA, and other small RNAs. Use when preparing small RNA-seq reads for downstream quantification or discovery analysis.

AI-powered integration of cryo-EM structural data with generative AI and molecular dynamics for structure-based drug design targeting flexible proteins and membrane complexes.

A general-purpose biomedical AI agent capable of executing complex research workflows using over 150 tools and databases.

AI-powered pan-cancer analysis integrating genomic, transcriptomic, proteomic, and epigenomic data for cancer subtyping, driver identification, and cross-cancer pattern discovery.

Implements nested cross-validation and stratified splits for unbiased model evaluation on biomedical datasets. Prevents data leakage and overfitting in biomarker discovery. Use when validating classifiers or optimizing hyperparameters on omics data.

Research destinations, read reviews, find restaurants and attractions, and plan trips with Tripadvisor

Quality control of phasing and imputation results. Filter by INFO scores, assess accuracy, and prepare imputed data for downstream analysis. Use when filtering low-quality imputed variants or validating imputation accuracy before GWAS.

Core interval arithmetic operations including intersect, subtract, merge, complement, map, and groupby using bedtools and pybedtools. Use when finding overlapping regions, removing overlaps, combining adjacent intervals, or transferring annotations between interval files.

Run STAgent to align histology images with expression matrices, perform clustering/SVG detection, and generate literature-backed spatial reports.

Predicts potential off-target sites for a given sgRNA sequence using mismatch analysis.

Assists in writing high-quality content by conducting research, adding citations, improving hooks, iterating on outlines, and providing real-time feedback on each section. Transforms your writing process from solo effort to collaborative partnership.

Analyze data evolution patterns in construction organizations. Assess digital maturity and data strategy for construction companies

Creates formal academic research papers following IEEE/ACM formatting standards with proper structure, citations, and scholarly writing style. Use when the user asks to write a research paper, academic paper, or conference paper on any topic.

Generate clarifying questions from research findings. MUST be used