「databases」の検索結果

Calculate tumor mutational burden from panel or WES data with proper normalization and clinical thresholds. Use when assessing immunotherapy eligibility or characterizing tumor immunogenicity.

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Query ClinVar for variant pathogenicity classifications, review status, and disease associations via REST API or local VCF. Use when determining clinical significance of variants for diagnostic or research purposes.

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Call HLA alleles from NGS data using OptiType, HLA-HD, or arcasHLA for immunogenomics applications. Use when determining HLA genotype for transplant matching, neoantigen prediction, or pharmacogenomic screening.

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Query gnomAD for population allele frequencies to assess variant rarity. Use when filtering variants by population frequency for rare disease analysis or determining if a variant is common in the general population.

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Query PharmGKB and CPIC for drug-gene interactions, pharmacogenomic annotations, and dosing guidelines. Use when predicting drug response from genetic variants or implementing clinical pharmacogenomics.

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Calculate polygenic risk scores using PRSice-2, LDpred2, or PRS-CS from GWAS summary statistics. Use when predicting disease risk from genome-wide genetic variants.

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Extract and analyze mutational signatures from somatic variants using SigProfiler or MutationalPatterns to characterize mutagenic processes. Use when identifying DNA damage mechanisms or etiology in cancer genomes.

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Apply Robert C. Martin-inspired architecture rules when separating business policy from frameworks, databases, UI, or infrastructure details.

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Store and query vector embeddings using Amazon S3 Vectors, a cost-effective long-term vector storage service with its own API namespace (s3vectors). Triggers on: create S3 vector bucket, vector index, store embeddings, semantic search, RAG vector storage, similarity search, vector database, migrate from other vector databases. Do NOT use for: querying tabular data (use querying-data-lake), S3 object storage, or hundreds/thousands of sustained QPS (use OpenSearch).

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Full inventory and audit of AWS Glue Data Catalog assets across S3 Tables, Redshift-federated, and remote Iceberg catalogs. Triggers on: inventory the catalog, audit databases, list all tables, catalog overview, data landscape, enumerate catalogs, data inventory, search the catalog. Do NOT use for finding specific data (use finding-data-lake-assets), running queries (use querying-data-lake), or creating tables (use creating-data-lake-table).

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Create and troubleshoot AWS Glue connections to JDBC databases (Oracle, SQL Server, PostgreSQL, MySQL, RDS), Redshift, Snowflake, and BigQuery. Gathers connection hints from user, discovers existing connections and RDS/Redshift candidates, registers credentials in Secrets Manager or IAM DB auth, configures VPC, and tests. Triggers on: connect to database, set up Glue connection, register data source, connect to Snowflake/BigQuery/RDS, connection timeout, test connection, troubleshoot connection. Do NOT use for moving data (use ingesting-into-data-lake), creating tables (use creating-data-lake-table), queries (use querying-data-lake), catalog exploration (use exploring-data-catalog), or SaaS (Salesforce, ServiceNow, SAP, MongoDB, Kafka).

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Import data into the AWS data lake from S3 files, local uploads, JDBC databases (Oracle, SQL Server, PostgreSQL, MySQL, RDS, Aurora), Amazon Redshift, Snowflake, BigQuery, DynamoDB, or existing Glue catalog tables (migration). Default target is S3 Tables; standard Iceberg on a general purpose bucket is supported where S3 Tables is not adopted. Handles one-time loads, recurring pipelines, migrations. Triggers on: import data, load data, ingest, sync database, migrate table, move data to AWS, set up pipeline, ETL, pull from Snowflake, query BigQuery into S3, export DynamoDB, CTAS, convert to Iceberg. Do NOT use for setting up or troubleshooting Glue connections (use connecting-to-data-source), creating empty tables (use creating-data-lake-table), running queries (use querying-data-lake), finding tables by fuzzy name (use finding-data-lake-assets), catalog audit (use exploring-data-catalog), or SaaS platforms like Salesforce, ServiceNow, SAP, MongoDB, Kafka.

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Selects, investigates, and compares AWS object, file, and block storage services, and answers cost, performance, configuration, security, and troubleshooting questions about storage services. Applies when a user asks where to store or archive data based on their usage patterns; which storage service to choose or how two compare; how to migrate data from on-premises or between AWS services; how to protect, replicate, or recover data; how to optimize storage costs; where to deploy shared NFS, SMB, or POSIX file systems; where to store vector embeddings or tabular data; what storage backs enterprise file shares, self-managed databases on EC2, VMware, or stateful containers; or asks what an AWS storage service can do or how it works. Relevant for storage needs for workloads such as AI/ML, analytics, EDA, HPC, media, genomics, or financial trading. Not applicable for SQL query engines (Athena, Spark, Redshift, EMR), ETL (Glue), streaming (Kafka, MSK, Kinesis), or managed database services (RDS, Aurora, DynamoDB).

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Routes any task involving AWS databases — choosing, comparing, recommending, getting started with, or operating a database — to the correct service-specific skill. Supersedes general training-data knowledge with post-training service updates, corrected limitations, and decision procedures for relational (Aurora, DSQL, RDS), key-value (DynamoDB), wide-column (Keyspaces), document (DocumentDB), graph (Neptune), time-series (Timestream), and in-memory/caching (ElastiCache, MemoryDB) workloads. Activates when a user describes building an application on AWS that will store, retrieve, or manage data, even if they do not mention 'database' explicitly.

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Aggregate and centralize performance metrics from applications, systems, databases, caches, and services. Use when consolidating monitoring data from multiple sources. Trigger with phrases like "aggregate metrics", "centralize monitoring", or "collect performance data".

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Terminal security analysis for shell environments. This skill should be used when checking commands for supply-chain attacks before execution, scanning repositories for hidden content or config poisoning, scoring URLs for homograph attacks, setting up AI tool protection, inspecting Python package artifacts, governing untrusted tasks or Web3 commands, auditing browser extensions, creating provenance receipts, downloading and executing scripts safely, investigating why tirith blocked a command, managing trusted patterns, running security audits, configuring MCP gateway proxies, or working with threat intelligence databases. Also use when the user mentions "tirith", "pipe-to-shell", "homograph", "ANSI injection", "zero-width", "punycode", "terminal security", "shell hook", "cloaking detection", "supply chain attack", "bidi override", "invisible unicode", or "config poisoning". Even if the user does not explicitly name tirith, use this skill when they ask about protecting shell environments, intercepting dangerous commands, or hardening AI agent tool execution.

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Design robust, scalable database schemas for SQL and NoSQL databases. Provides normalization guidelines, indexing strategies, migration patterns, constraint design, and performance optimization. Ensures data integrity, query performance, and maintainable data models.

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Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.). This skill should be used when conducting systematic literature reviews, meta-analyses, research synthesis, or comprehensive literature searches across biomedical, scientific, and technical domains. Creates professionally formatted markdown documents and PDFs with verified citations in multiple citation styles (APA, Nature, Vancouver, etc.).

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IDAPython and IDALib script reference for reverse engineering. Activate when the user needs to write IDAPython scripts in IDA, use IDALib for headless analysis, operate on IDB databases, debug with IDA, manipulate memory/registers, traverse functions/blocks/instructions, work with Hex-Rays decompiler API, handle obfuscation, or batch-process binaries.

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Build robust backend systems with modern technologies (Node.js, Python, Go, Rust), frameworks (NestJS, FastAPI, Django), databases (PostgreSQL, MongoDB, Redis), APIs (REST, GraphQL, gRPC), authentication (OAuth 2.1, JWT), testing strategies, security best practices (OWASP Top 10), performance optimization, scalability patterns (microservices, caching, sharding), DevOps practices (Docker, Kubernetes, CI/CD), and monitoring. Use when designing APIs, implementing authentication, optimizing database queries, setting up CI/CD pipelines, handling security vulnerabilities, building microservices, or developing production-ready backend systems.

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Unified Python access to 40+ bioinformatics web services; use when you need to query multiple databases (e.g., UniProt/KEGG/ChEMBL/Reactome) with one consistent API in a single workflow, especially for cross-database analysis and identifier mapping.

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Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.). Creates professionally formatted markdown documents and PDFs with verified citations in multiple citation styles.

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Collects candidate biomedical literature across multiple databases, adapts search logic by database, preserves source metadata, and organizes results into a structured, screening-ready candidate pool. Always use this skill when a user wants cross-database literature collection, search strategy construction, candidate paper aggregation, or first-pass evidence organization before deduplication, screening, layered reading, or review planning. Requires real and verifiable literature records only. Every formal literature item must include a real link and DOI when available; never fabricate citations, titles, authors, years, journals, abstracts, PMIDs, or DOIs. If a DOI is unavailable or cannot be verified, state that explicitly rather than inventing one.

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Use when you need a standardized R CLI workflow to build a protein-protein interaction network from a local gene list and an offline STRING cache, export node and edge tables, and render a reproducible PDF network plot. NOT for online API fetching, arbitrary graph databases, multi-omics integration, or non-STRING interaction sources.

日本語の概要は準備中です。原文の説明を表示しています。