「ept」の検索結果

Maps between gene identifier systems (Ensembl, Entrez, HGNC symbol, UniProt, RefSeq, MANE) using AnnotationDbi, biomaRt, mygene, pyensembl, and Ensembl REST. Encodes Ensembl version stripping with GENCODE _PAR_Y preservation, the Ziemann 2016 Excel autocorrect debacle and Bruford 2020 HGNC renames (SEPT*->SEPTIN*, MARCH*->MARCHF*, MARC*->MTARC*, DEC1->DELEC1), OCT4/POU5F1 alias resolution, biomaRt archive endpoints for release pinning, the `filters` (plural) gotcha, MANE Select for clinical reporting, cross-species orthology via Ensembl Compara / OMA / OrthoDB, and tx2gene construction for tximport. Use when converting gene IDs across systems, handling renamed symbols, building tx2gene, pinning to a specific Ensembl release for reproducibility, or mapping cross-species orthologs.

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Calculates statistical power for high-dimensional genomics experiments (bulk RNA-seq, scRNA-seq, ATAC-seq, ChIP-seq, methylation, proteomics) under negative-binomial count models using RNASeqPower, PROPER, and simulation via powsimR, distinguishing per-gene from marginal (transcriptome-wide) power, the role of mean expression and dispersion, and the sequencing-depth-versus-replicate tradeoff. Covers simulation as the honest default for overdispersed counts, FDR-aware average power versus single-test power, observed/post-hoc power as an anti-pattern, and the winner's-curse / Type-S / Type-M consequences of underpowering. Use when planning replicate number for a sequencing experiment, deciding whether to add depth or samples, choosing closed-form versus simulation power, estimating power from pilot dispersions, or justifying replication in a grant. For clinical-trial power see clinical-biostatistics/power-and-sample-size; for the inverse sample-size question see experimental-design/sample-size.

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Detect somatic and germline copy number variants from targeted, exome, and whole-genome sequencing with CNVkit, a read-depth caller that combines on-target and off-target (antitarget) coverage. Covers panel-of-normals construction, flat-reference tumor-only calling, hybrid/amplicon/WGS modes, CBS vs HMM segmentation selection, purity-aware integer calling, and reconciliation against GATK and allele-specific callers. Use when calling CNVs from hybrid-capture panels or exomes, deciding whether CNVkit (depth-only) is the right tool versus an allele-specific caller, building a panel of normals, diagnosing flat-reference false positives, or interpreting log2 ratios into copy-number states.

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Builds and applies 3D pharmacophore models using RDKit Pharm3D, the apo2ph4 receptor-based workflow (Heider et al. 2023), Pharmer / Pharmit for search, and PharmacoForge for protein-pocket-conditioned pharmacophore generation (Flynn et al. 2025), covering ligand-based pharmacophores from active-set alignment and receptor-based pharmacophores from binding-pocket geometry. Explicitly handles feature types, geometric tolerances, partial matching, and pharmacophore-based virtual screening. Use when identifying scaffold-hopping candidates, building shape-and-feature search queries, or transferring SAR across chemotypes.

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Generate alignment statistics using samtools flagstat, stats, depth, coverage, and mosdepth. Use when assessing alignment quality, calculating coverage, or generating QC reports.

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Analyzes differential transcript usage (DTU) and isoform switches with functional consequence prediction (NMD via 50nt rule, ORF disruption, protein domain loss/gain, signal peptide changes, IDR alterations, coding-potential shifts). Tools include IsoformSwitchAnalyzeR v2 (auto-selects satuRn for >5 reps else DEXSeq), the manual DRIMSeq -> DEXSeq/satuRn -> stageR DTU pipeline, and fishpond/swish for inferential-uncertainty-aware DTE. Distinguishes DTU from DGE and DTE; integrates external annotators (CPC2, Pfam, SignalP, IUPred2A or DeepTMHMM). Use when investigating how splicing differences alter protein function or trigger NMD-mediated degradation.

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Assesses RNA-seq data quality specifically for alternative splicing analysis. QC layers include experimental design audit (library prep, read length, depth, replicates), STAR 2-pass cohort-style alignment, junction saturation curves and discovery plateau detection, novel-vs-known junction ratio diagnostics, junction-overhang distribution, splice-site strength scoring (MaxEntScan intrinsic + SpliceAI context-aware), strandedness verification, GENCODE basic vs comprehensive choice, and rRNA contamination screening. Splicing analysis is more demanding than DGE on read length, depth, library prep, alignment strategy, and annotation choice — failures silently bias PSI estimates and inflate novel-junction false positives. Use when evaluating data suitability for splicing analysis, troubleshooting low event detection, or designing sequencing experiments where AS is a primary endpoint.

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Access Core Motion accelerometer, gyroscope, magnetometer, device-motion, pedometer, activity-recognition, altitude, headphone motion, batched high-frequency workout motion, and water-submersion/depth data. Use when reading device sensors, counting steps, detecting walking/running/driving/cycling, tracking altitude, building motion interactions, handling AirPods head tracking, or implementing watchOS dive/depth features.

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Answer Viking AI Search product questions, CLI usage questions, API/auth questions, configuration questions, and troubleshooting questions by grounding every claim in either the installed `vs` CLI's own output or official Volcengine documentation. Never fabricate.

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Review a business plan from the perspective of a hostile devil's advocate. Asks: what kills this in month 6? What's everyone politely not mentioning? Outputs a verdict — EXISTENTIAL RISK / SOLVABLE RISKS / LOW-RISK / WRONG QUESTION. Use after the investor/customer/operator reviews are done, as the final gauntlet before committing real time and money. Triggered by: 'skeptic review', 'devil's advocate', 'what would kill this', 'red team this', '泼冷水', '杀手在哪'.

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Trace error propagation through a multi-agent session by agent depth — where failures originated, the depth at which they appeared, and how they cascaded up to parent agents — using the Agent Monitor workflow intelligence API and the session event stream. Use when a multi-agent run failed and you need to find the origin and blast radius of the failure.

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Debug a specific session by inspecting its full event chain (PreToolUse, PostToolUse, Stop, SubagentStop, Compaction, APIError, TurnDuration, Notification events), agent hierarchy (recursive parent/child tree with subagent_type and depth), token usage with compaction baselines, workflow intelligence data (orchestration DAG, error propagation by depth), and session metadata (thinking_blocks, turn_count, total_turn_duration_ms).

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Search all Japanese NLP resources (libraries, models, datasets, tutorials, dictionaries, Hugging Face). Accepts keywords or natural language questions in any language. Use whenever the user asks which Japanese NLP resource to use, or wants to find one: tokenizers / morphological analyzers, BERT or LLM models, embeddings, NER, text classification, datasets / corpora, dictionaries, tutorials, or Hugging Face models. Trigger phrases include '日本語の形態素解析ライブラリ', 'おすすめの日本語tokenizer', '日本語BERTモデル', '日本語の感情分析データセット', '日本語LLM 一覧', 'which Japanese embedding model', 'Japanese NER library'.

Use when a creative task has no direction yet: finding inspiration, exploring looks or styles, proposing concept directions to pick between, building a moodboard or reference board, doing visual research, mining existing assets for a style, or escaping generic AI-looking output. Also when a saved Scenario collection should drive a new batch as art direction. Keywords: inspiration, moodboard, references, art direction, style exploration, concepts, serendipity, ideation, surprise me.

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Use when creating game art through Scenario MCP: sprites, sprite sheets, icons, props, loot, tilesets and autotile terrain transitions, seamless tiles, isometric buildings, top-down maps, pixel art, UI buttons and panels, parallax background layers or depth planes for side-scrollers, and character or concept art; or when assets need transparent backgrounds, background removal, style-consistent variation batches, upscaling, pixel-grid cleanup, or PNG export for Unity, Godot, or Unreal.

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Use when a Scenario output must be checked and improved rather than accepted first roll: iterating a generation until it matches the brief, fixing a batch that came back off-brief, retrying failed shots methodically, wiring an automated generate, review, revise loop, or deciding whether to re-prompt, swap references, inpaint, post-process, or change model. Keywords: refine, iterate, critique, review loop, QA, self-correction, verify, acceptance criteria, retry, drift.

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Translate ideas, feature requests, or vague concepts into specific, actionable dev briefs. Use this skill whenever the user has an idea they want to build, a feature to spec out, a bug to file, a project to scope, or needs to convert a half-formed idea into a clear implementation brief. Triggers on I want to add, we should build, can we make, what is the plan for, how do we implement, dev brief, feature spec, PRD, user story, acceptance criteria, scope this, prioritize. Also triggers when the user has a list of things they want to build and needs help converting them into well-formed tasks.

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Generate, evaluate, and narrow brand concepts during early ideation including positioning territories, naming candidates, mood directions, and narrative angles. Use this skill whenever the user is in the early phase of brand creation, exploring brand directions, brainstorming names, building moodboards, generating positioning options, or trying to choose between multiple brand directions. Triggers on brand ideation, brand concept, naming, brand name, name candidates, positioning, brand positioning, mood board, brand directions, exploring brands, early brand work, brand exploration, brand brainstorm, brand options. Also triggers when the user has multiple half-formed brand ideas and needs help converging on one, even if they do not say 'ideation' explicitly.

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Validation-first design for Cavekit — every kit requirement must be automatically verifiable. Six-gate validation pipeline, phase gates, merge protocol, completion signals, acceptance criteria patterns. Use when designing acceptance criteria, wiring CI gates, or debugging why an agent is producing output that nobody can verify.

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Implement Terraform Provider resources and data sources using the Plugin Framework: CRUD operations, schema design, plan modifiers and validators, not-found handling, waiters for eventually consistent APIs, import support, resource design principles, and required acceptance test coverage. Use when adding or changing a resource or data source, deciding whether an API concept should be a resource, wiring a resource to the provider's configured client, handling drift or resource-not-found, or reviewing a resource implementation before submission.

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Terraform provider acceptance test patterns using terraform-plugin-testing with the Plugin Framework. Covers test structure, TestCase/TestStep fields, ConfigStateChecks with custom statecheck.StateCheck implementations, plan checks, CompareValue for cross-step assertions, config helpers, import testing with ImportStateKind, sweepers, and scenario patterns (basic, update, disappears, validation, regression), and ephemeral resource testing with the echoprovider package. Use when writing, reviewing, or debugging provider acceptance tests, including questions about statecheck, plancheck, TestCheckFunc, CheckDestroy, ExpectError, import state verification, ephemeral resources, or how to structure test files.

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Writes a settlement letter on the right footing — and warns you when marking it 'without prejudice' won't actually keep it out of court. A genuine settlement letter is normally protected (the judge can't see it), but only if the substance is a real attempt to settle, and even then there are exceptions. The skill picks the correct footing — without prejudice (WP), without prejudice save as to costs (WPSATC / Calderbank), or open — drafts the finished letter, and surfaces the Unilever v Procter & Gamble exceptions that get WP material admitted despite the label, which a plain template won't flag. Built for juniors and in-house counsel drafting a settlement or Calderbank offer who need the footing right the first time. Use when the user asks to draft a WP letter, a Calderbank, a settlement letter, or wants to know whether material is likely protected from disclosure.

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Practitioner skill for advising on EU Regulation 2023/2854 (Data Act). Covers Chapters II-VII (IoT data access, mandatory B2B sharing, unfair contract terms, public-sector exceptional need, cloud switching, third-country governmental access) and Chapter VIII (interoperability and smart contracts, gate-only). Use when the user asks about Data Act rights or obligations, drafts a Data Act notice or letter, reviews a data-sharing or cloud-switching contract under the Data Act, runs a Data Act gap analysis, or asks how the Data Act interacts with GDPR, the DMA, the Trade Secrets Directive, or sectoral law. Triggers include "Data Act", "Datengesetz", "Regulation (EU) 2023/2854", "Art. 4(1) request", "Art. 5(1) third-party request", "trade-secret handbrake", "cloud switching obligations", "Chapter VI", "Ch V exceptional need", and references to specific Data Act articles or recitals.

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Design an error analysis protocol to diagnose the root cause of student mistakes and misconceptions. Use when error patterns appear in student work and targeted feedback is needed.

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。