572건 · 관련도순
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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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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Use immediately after RBR confirms a root cause, or after any confirmed finding from security-audit-lens, legacy-investigation-lens, a scan skill, or a Critical/Required code-review finding, 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 — 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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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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Strict SMILES validation, structural comparison, and modification verification. Catches invalid LLM-generated molecules.
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Medicinal chemistry filters. Apply drug-likeness rules (Lipinski, Veber), PAINS filters, structural alerts, complexity metrics, for compound prioritization and library filtering.
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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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Turns untargeted LC-MS/MS features (m/z, RT, MS/MS) into confidence-stratified metabolite annotations using spectral-library matching (matchms), in-silico tools (SIRIUS/CSI:FingerID, MetFrag) and molecular networking, and assigns a defensible MSI/Schymanski confidence level to each. Use when naming detected features, scoring MS/MS against a reference library, running SIRIUS, or deciding what confidence level an evidence set actually supports. For upstream feature extraction see metabolomics/xcms-preprocessing and metabolomics/msdial-preprocessing; for downstream enrichment that must respect these levels see metabolomics/pathway-mapping; for lipid-specific structural annotation see metabolomics/lipidomics.
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Performs molecular similarity searching using Tanimoto, Tversky, Dice, and cosine coefficients on bit/count fingerprints with explicit choice rules for symmetric vs asymmetric measures, scaffold-hopping vs lead-optimization regimes, activity-cliff diagnosis, and large-library nearest-neighbor methods (BulkTanimoto, Annoy MHFP6, USRCAT). Use when ranking compounds by structural resemblance to a query, clustering libraries, finding analogs, or diagnosing activity cliffs.
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Searches molecular libraries for substructure matches using SMARTS patterns with explicit handling of recursive SMARTS, ring membership, aromaticity dialect, vector binding, atom map indices, and reactive/PAINS/REOS/Brenk/Aldridge filter catalogs. Use when filtering compounds by pharmacophore features, functional groups, scaffold matches, or screening for assay-interference / structural alerts.
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Retrieve structurally similar compounds with known properties from ChEMBL/ZINC to ground predictions and inform optimization. Based on MolRAG (Xian 2025, ACL).
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Simplify cluttered UI by removing unnecessary elements, choices, features, and structural complexity. Use when the problem is too many controls, options, features, or competing elements—not when the structure is sound and the real issue is only visual intensity or lack of personality.
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Reduce visual intensity, saturation, and noise while preserving hierarchy and character. Use when the structure is basically sound but the design feels too loud, bold, garish, aggressive, or overstimulating—not when the real problem is structural clutter, too many features, or not enough personality.
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Analyze a paper draft objectively and strictly. Identifies logic gaps, missing proofs, structural issues, and research weaknesses. Reviewer mode. Use for "analyze this paper", "find weaknesses in draft". 旧名 review-analyze。
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