532 件 ・ 関連度順
概要と使いどころ
Apply when concurrent actors might write to the same file, branch, key, or state object. Eliminate the sharing first; serialize structurally only when one shared writer is a real invariant.
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Control risky structural change by proving a refactor is necessary and that behaviour, contracts, data, security boundaries, and operational properties can be preserved through a staged migration. Use whenever the user wants to refactor, restructure, clean up, modernise, extract, migrate, rewrite, or re-architect existing code, or asks whether they should. Prefer this over starting the refactor. DO NOT REFACTOR is a first-class outcome. Part of the audit suite; inherits the shared constitution while its own job is proving necessity and behavioural preservation.
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Use ast-grep (sg) for AST-aware code search and rewrite across 25 languages. Trigger for structural code matching or deterministic codemods: find every function/call/class/import shaped like X, rewrite console.log to logger.info, strip `as any`, migrate require() to import, find empty catch blocks or missing await, and scan/apply YAML rules. Prefer this over rg/grep when the target is syntax shape rather than text; use rg for string contents, comments, filenames, or regex-style byte searches.
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Use when you need code research over an indexed codebase with minimal context: structural graph queries (who calls X, call chains, architecture overview, dead code, cross-service HTTP routes) instead of file-by-file grep/read cycles. Also trigger to minimise token spend on repetitive code exploration.
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Classify ideation input, run structural classification, seed fractal ideation folders, and persist engagement/expansion mode
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Apply Gang of Four design patterns to solve architectural problems in TypeScript. Use when refactoring code architecture, implementing extensible systems, decoupling components, or following SOLID principles. Covers all 22 GoF patterns: Creational (Factory Method, Abstract Factory, Builder, Prototype, Singleton), Structural (Adapter, Bridge, Composite, Decorator, Facade, Flyweight, Proxy), and Behavioral (Chain of Responsibility, Command, Iterator, Mediator, Memento, Observer, State, Strategy, Template Method, Visitor).
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Designs the data model, API contracts, and structural foundation of the system.
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Both user [{"tool": "web_search", "params": {"query": "
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{"tool": "web_search", "params": {"query": "Continuous Learning Loop: Fehler-Capture +
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Access AlphaFold's 200M+ AI-predicted protein structures. Retrieve structures by UniProt ID, download PDB/mmCIF files, analyze confidence metrics (pLDDT, PAE), for drug discovery and structural biology.
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Retrieve and analyze AlphaFold predicted structures for a protein. Use when the user provides a specific UniProt Accession ID and wants structural confidence metrics (pLDDT), domain boundary analysis, or disorder assessment. Do not use if the user only has a protein name, gene name, or amino acid sequence — ask for a UniProt ID first.
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Templates and structural patterns for API docs, feature docs, config guides, and REST endpoint documentation. Use when structuring docs, applying Markdown templates, or standardizing doc formats.
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Validate Claude Code skills against the agentskills specification. Catches structural, semantic, and naming issues before users do.
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Performs architectural code reviews focusing on design patterns, duplication, circular dependencies, and refactoring impact. Is the design consistent with the codebase? Use when reviewing code changes for architectural concerns, code smells, or structural issues.
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Use immediately after RBR confirms a root cause and a fix is scoped, before considering the finding complete. Checks whether the confirmed defect is one instance of a structurally identical pattern elsewhere in the same file family, workflow, or business-domain area, and folds in or explicitly defers every other instance found. Mandatory for Architect and CAO — not an optional lens the agent judges when to apply.
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Biopython is a comprehensive set of freely available Python tools for biological computation. It provides functionality for sequence manipulation, file I/O, database access, structural bioinformatics, phylogenetics, and many other bioinformatics tasks.
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tespit etme (s) prompt injection attacks targeting LLM-based applications using a multi-layered defense combining regex pattern matching for known attack signatures, heuristic scoring for structural anomalies, and transformer-based classification with DeBERTa models. The tespit etme (or) analyzes user inputs before they reach the LLM, flagging direct injections (system prompt overrides, role-play escapes, instruction hijacking) and indirect injections (encoded payloads, multi-language obfuscation, delimiter-...
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Detects prompt injection attacks targeting LLM-based applications using a multi-layered defense combining regex pattern matching for known attack signatures, heuristic scoring for structural anomalies, and transformer-based classification with DeBERTa models. The detector analyzes user inputs before they reach the LLM, flagging direct injections (system prompt overrides, role-play escapes, instruction hijacking) and indirect injections (encoded payloads, multi-language obfuscation, delimiter-based escapes). Based on the OWASP LLM Top 10 (LLM01:2025 Prompt Injection) and Simon Willison's prompt injection taxonomy. Activates for requests involving prompt injection detection, LLM input sanitization, AI security scanning, or prompt attack classification.
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Build circular genome visualizations using circlize (R), pyCirclize (Python), or Circos (Perl CLI) with ideogram tracks, multi-data tracks (scatter, histogram, heatmap), chord/link arcs for interactions, and explicit circos.clear() between plots. Covers when circular is appropriate vs when Cartesian wins (Cleveland-McGill 1984), karyograms, and chromosome adjacency in chord diagrams. Use when adjacency on the circle conveys meaning — chromosome-level overview, structural variants, Hi-C interactions, cross-genome comparisons.
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Chains a somatic (tumor-normal) SNV/indel and structural-variant pipeline end to end with GATK Mutect2 (or Strelka2), wiring the somatic-specific machinery - panel-of-normals and gnomAD germline-resource priors, GetPileupSummaries/CalculateContamination, and LearnReadOrientationModel FFPE/oxoG orientation-bias filtering fed into FilterMutectCalls. Use when calling somatic mutations from a tumor-normal pair (or tumor-only with PoN caveats), deciding which artifact filter removes which class of false positive, reasoning about VAF/purity/ploidy and clonal-vs-subclonal detection, adding somatic SV/CNV or TMB/MSI/signatures, or routing variants to AMP/ASCO/CAP tier and oncogenicity interpretation (never germline ACMG).
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Strict SMILES validation, structural comparison, and modification verification. Catches invalid LLM-generated molecules.
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Quantitative drug-target validation pipeline. Scores druggability, selectivity, safety profile, ADMET feasibility, and structural tractability with a composite Target Validation Score (0-100) and GO/NO-GO recommendation. Use for go/no-go decisions on a target before commit-to-medchem, target prioritization across a list, and target-deselection rationale.
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Interpretable ADMET analysis with mechanistic reasoning. Maps liabilities to structural causes and biological pathways. Based on CoTox (Park 2025) and DrugR (Liu 2026).
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Experimental data: discover and acquire raw or near-raw measurements, sample-level observations, and reusable datasets from sequencing, transcriptomics, single-cell, perturbation, proteomics, metabolomics, genomics, and structural-biology repositories. Use for study or sample metadata, matrices, reads, spectra, experimental structures, and downloadable research artifacts—not curated database assertions or reference marker collections.
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