「ida」の検索結果

Generates complete conventional non-oncology bioinformatics research designs from a user-provided disease context, process-related gene family or biological theme, and validation direction. Use when a study centers on multi-dataset bulk transcriptome integration, DEG analysis, process-gene intersection, enrichment analysis, GSEA, PPI hub-gene prioritization, TF/miRNA regulatory networks, ROC-based biomarker evaluation, and immune infiltration analysis. Covers five study patterns (process-DEG discovery, enrichment/GSEA interpretation, hub-gene prioritization, regulatory-network and immune interpretation, multi-layer public validation) and always outputs Lite / Standard / Advanced / Publication+ with a recommended primary plan, stepwise workflow, figure plan, validation hierarchy, minimal executable version, publication upgrade path, and strictly verified literature retrieval.

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Generates complete conventional oncology bulk-transcriptome biomarker and hub-gene research designs from a user-provided cancer type and study direction. Always use this skill whenever a user wants to design, plan, or build a tumor bioinformatics study centered on differential expression, prognostic filtering or risk modeling, PPI-based hub-gene prioritization, diagnostic/prognostic evaluation, clinical association, immune infiltration context, methylation context, and optional tissue or cell validation. Covers five study patterns (signature-first prognostic workflow, hub-gene-first biomarker workflow, hybrid signature-to-hub workflow, immune-context biomarker workflow, translational validation workflow) and always outputs four workload configs (Lite / Standard / Advanced / Publication+) with recommended primary plan, step-by-step workflow, figure plan, validation strategy, minimal executable version, publication upgrade path...

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Designs complete single-cell research plans from a user-provided biomedical direction. Always use this skill whenever a user wants to design, scope, or structure a single-cell study — including disease-focused, mechanism-focused, biomarker-focused, translational, perturbation-inspired, or validation-aware projects. It should define the research question, choose the best-fit study pattern, recommend sample grouping logic, suggest reference datasets as examples only, specify the core analysis modules, propose a validation ladder, and output four workload configurations (Lite / Standard / Advanced / Publication+). Never fabricate datasets, sample metadata, accession numbers, cohort availability, cell-type labels, external validation resources, or literature references. Always include the mandatory Dataset Disclaimer immediately before any workflow section that mentions datasets or public resources.

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Designs QTL colocalization studies that connect eQTL, pQTL, sQTL, or related molecular QTL signals with GWAS loci. Always use this skill whenever a user wants to plan, scope, or structure a locus-level study asking whether a GWAS association and a molecular QTL association may reflect the same underlying causal signal. Covers locus definition, QTL/GWAS source architecture, ancestry and LD alignment, single-locus vs multi-locus strategy, candidate-gene prioritization, optional fine-mapping, linked MR/SMR follow-up, and functional annotation. Always output four workload configurations (Lite / Standard / Advanced / Publication+) with a recommended primary plan, stepwise workflow, method rationale, evidence hierarchy, figure plan, minimal executable version, and strictly verified literature guidance with no fabricated references. Never equate colocalization with causality proof, mediation proof, or automatic target validation. Always include the mandatory Dataset Disclaimer immediately before any workflow section that mentions datasets, repositories, consortia, or public resources.

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Assesses whether study results are trustworthy by auditing design integrity, sample structure, statistical handling, bias control, validation chain, and claim discipline. It identifies where results are robust, fragile, overfit, under-validated, or overclaimed. Always separate reported findings from reliability judgment. Never fabricate references, PMIDs, DOIs, trial identifiers, study features, or validation claims.

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Designs complete integrated research plans for bulk transcriptomics, proteomics, metabolomics, and related omics from a user-provided biomedical direction. Always use this skill whenever a user wants to design, scope, or structure a bulk multi-omics or single-omics-plus-clinical study — including disease-focused, mechanism-focused, biomarker-focused, stratification-oriented, or translational projects. It should define the research question, choose the best-fit study pattern, recommend example datasets as reference candidates only, specify the core analysis modules and method choices, propose a validation ladder, and output four workload configurations (Lite / Standard / Advanced / Publication+). Never fabricate datasets, accession numbers, sample counts, metadata completeness, cohort availability, assay coverage, literature references, PMIDs, DOIs, or validation status. Always include the mandatory Dataset Disclaimer immediately before any workflow section that mentions datasets or public resources.

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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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Enforce XQUIC test coverage and local validation gates. Use when code, build, or test changes need verification; before commit or pull request; or when asked to build, test, validate, or verify XQUIC. Requires paired happy-path and abnormal-path unit tests, the complete local unit suite, and explicit endpoint coverage or gap reporting for production behavior changes.

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Generate argument validation logic with type coercion, constraints, custom validators, and helpful error messages for CLI applications.

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This skill should be considered when you need to answer reflow machine maintenance questions or provide detailed guidance based on thermocouple data, MES data or defect data and reflow technical handbooks. This skill covers how to obtain important concepts, calculations, definitions, thresholds, and others from the handbook and how to do cross validations between handbook and datasets.

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Rigorous visual validation expert specializing in UI testing, design system compliance, and accessibility verification. Masters screenshot analysis, visual regression testing, and component validation. Use PROACTIVELY to verify UI modifications have achieved their intended goals through comprehensive visual analysis.

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DataOps and DS/MLOps testing reference for data tiering, Bronze-to-Silver validation placement, pipeline invariants, pytest categories, and validation-versus-drift. Use when designing, reviewing, or generating data pipelines, transformation code, data validation, or data-science test suites.

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Design LLM-as-Judge evaluators for subjective criteria that code-based checks cannot handle. Use when a failure mode requires interpretation (tone, faithfulness, relevance, completeness). Do NOT use when the failure mode can be checked with code (regex, schema validation, execution tests); use `write-code-eval`. To validate an existing judge, use `validate-evaluator`.

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Consolidates redundant documentation while preserving all valuable content; keeps a doc set truthful after things change. Modes: (1) POST-CHANGE GOVERNANCE — when code, scripts, config, env vars, ports, paths, deployment, auth, tests, or a documented procedure changed; also "which docs are now wrong", "check docs for inconsistencies", "过时的命令/路径", "文档同步". Use it even when the user mentions only the change and never the docs — updating them is part of the change, not optional cleanup. (2) CONSOLIDATION — "clean up docs", "documentation bloat", "reduce documentation sprawl", "consolidate documentation", "too many doc files", "merge redundant docs", "merge these docs", "文档太多/太乱", multiple files covering the same topic, or documentation exceeding 500 lines across multiple files on similar topics. Finds stale copies of a fact changed in only one place, values that should never have been persisted (counts, totals, "N items", restated summaries), rival definitions that drift apart, and orphaned cross-references.

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Produce a structured churn analysis that separates avoidable from unavoidable churn. Use when investigating why customers are leaving, identifying at-risk segments, calculating net revenue retention, or building a retention intervention plan. Produces a churn report with rate calculations, categorised reasons by avoidability, segment breakdown, timing analysis, early warning signals, and prioritised interventions ranked by estimated impact.

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Turn interview notes into a structured candidate scorecard and hire recommendation. Use when asked to write an interview scorecard, a candidate evaluation, an interview debrief, or to summarize feedback into a hire/no-hire call. Produces a per-competency assessment with evidence and ratings, an overall recommendation with confidence, and the open questions for the next round — evidence-based, bias-aware, and decision-ready.

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Detect Insecure Direct Object Reference (IDOR) vulnerabilities in a codebase using a three-phase approach: recon (find candidates), batched verify (check authorization in parallel subagents, 3 candidates each), and merge (consolidate batch results). Checks endpoints for missing ownership or authorization checks on user-supplied identifiers. Requires sast/architecture.md (run sast-analysis first). Outputs findings to sast/idor-results.md. Use when asked to find IDOR or authorization bypass bugs.

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Detect hardcoded sensitive data (API keys, access tokens, private keys, passwords, etc.) in publicly accessible code — frontend JavaScript, mobile apps, client-side bundles, and HTML templates. Uses a three-phase approach: recon (find secret candidates), batched verify (confirm real secrets in public code paths, 3 candidates each), and merge (consolidate batch results). Requires sast/architecture.md (run sast-analysis first). Outputs findings to sast/hardcodedsecrets-results.md. Use when asked to find hardcoded secrets, leaked API keys, or exposed credentials.

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Treats a ctDNA assay as a molecule-counting experiment at the Poisson edge and builds its analytical-validation case the measurement-science way. Covers the genome-equivalent currency (~330 haploid copies/ng), the lambda = input_GE x VAF sampling ceiling (lambda>=3 for ~95% detection), the error-suppression ladder (raw NGS ~1e-3 -> single-strand UMI ~1e-4/1e-5 -> duplex <1e-7), the CLSI EP17 LoB/LoD/LoD95/LoQ framework, the per-locus-vs-panel-integrated LoD distinction that lets bespoke MRD reach ppm, contrived/SEQC2 reference standards, and honest LoD reporting conditioned on input mass + consensus depth + replicate detection rate. Use when stating or trusting a sensitivity claim, designing a dilution-series validation, deciding how many genome equivalents are needed at a target VAF, choosing a single-locus vs panel-integrated LoD, or auditing a "detects 0.1% VAF" claim.

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Detects focal chromatin loops (point interactions / corner-dots) in balanced Hi-C and Micro-C contact maps and aggregates/validates a loop set. Covers de-novo calling with cooltools dots (HiCCUPS-style 4-background local enrichment with lambda-chunked FDR), chromosight (template-correlation), and Mustache (scale-space blob detection); aggregate peak analysis (APA) via cooltools pileup for confirmation; the depth/resolution prerequisite (de-novo needs ~5-10kb resolution = hundreds of millions to billions of valid pairs); consensus across callers and convergent-CTCF support as validation; and differential loops via union anchors plus chromosight quantify. Use when calling chromatin loops or dots from a cooler, deciding whether a map is deep enough to call de-novo vs running APA on known CTCF/cohesin anchors, building an aggregate peak pileup, comparing loops across conditions, or validating loop calls. For HiChIP/PLAC-seq/PCHi-C protein-anchored data use FitHiChIP/MAPS, not dots.

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Identify tumor neoantigens from somatic variants with pVACtools (pVACseq/pVACfuse/pVACbind/pVACvector/pVACview) for personalized cancer vaccines and checkpoint biomarkers. Encodes the field's hard truth that binding prediction is the easy, near-solved part and single-digit-percent PPV lives downstream — so it centers clonality/CCF, HLA LOH (the silent invalidator), expression, proximal-variant phasing, agretopicity/foreignness quality, and the predicted->presented->immunogenic validation tiers. Use when nominating vaccine targets, ranking neoantigens, or building a tumor-to-candidate pipeline. Binding details in mhc-binding-prediction; ranking in immunogenicity-scoring.

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Download raw sequencing reads from NCBI SRA using sra-tools (prefetch, fasterq-dump, vdb-validate) or the ENA mirror. Use when pulling FASTQ for SRR/ERR/DRR accessions, deciding between SRA-direct, ENA mirror, or AWS/GCP cloud mirror (STRIDES), handling --include-technical for 10x and other single-cell records, validating with MD5/vdb-validate, navigating SRR/SRX/SRS/SRP/PRJNA hierarchy, or finding accessions via pysradb. Encodes SRA cloud-egress economics, the fasterq-dump uncompressed-scratch trap, and the --max-size default that silently truncates large prefetches.

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Reads, validates, and prepares CDISC SDTM and ADaM clinical trial data for analysis. Covers SDTM domain joins (DM, AE, EX, VS, LB, DS), ADaM architecture (ADSL, BDS, OCCDS, ADTTE) with traceability, treatment-emergent AE conventions, baseline derivation, SUPPQUAL/NSV handling, Define-XML 2.1, and Pinnacle 21 / CORE validation. Use when working with clinical trial datasets in CDISC SDTM/ADaM format, preparing analysis-ready data, or validating for regulatory submission.

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Design, validate, and plan a startup from scratch. Covers market research, competitive analysis, business model, brand identity, product definition, financial projections, and validation experiments. Trigger when the user has a startup idea to explore, wants to validate a business concept, needs a business plan or lean canvas, asks for market sizing or competitive landscape, wants brand positioning or go-to-market strategy, or says anything like "I have an idea for..." or "is this idea worth pursuing". Also handles resuming from a previous checkpoint.

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。