「ambiguity」の検索結果

Use when the user explicitly wants autonomous progress without routine clarification stops: "plow ahead", "do not stop", "use your best judgment", "keep going until done", "finish while I am away", "do not ask questions unless truly blocked", or similar. Convert ordinary ambiguity into stated assumptions, proceed through implementation and validation, stop only for true blockers, and end with a clear recap of decisions, changes, verification, and residual risk.

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Write reliable prompts for Agentica/REPL agents that avoid LLM instruction ambiguity

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。

Use when writing, reviewing, or refactoring SwiftUI code for iOS or macOS, including state and `@Observable` data flow, view composition, resizable layouts, safe areas, display scale, performance, lists, environment, localization, animation, Liquid Glass, and API migration. Also use for iPhone Duo, foldable, or large-display layouts (`NavigationSplitView` on large displays, iPhone tab sidebar, two-column reflow, foldable grids, `ArrangementView`, `ReservedRegion`), hinge effects, vertical bars, `@State` initialization or synthesized-property diagnostics, `@ContentBuilder` ambiguity, `reorderable` drag/drop, custom `AsyncImage` `URLSession`, swipe actions outside List, item-bound `alert`/`confirmationDialog`, `ToolbarOverflowMenu`, `AnimatableValues`, Document APIs (`Document`/`DocumentReader`), and Instruments `.trace` capture or analysis.

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Protein grouping and inference from peptide identifications. Use when resolving protein ambiguity from shared peptides. Handles protein groups and protein-level FDR control using parsimony and probabilistic approaches.

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。

Socratic deep interview with mathematical ambiguity gating before explicit execution approval

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。

Creates comprehensive handoff documents for seamless AI agent session transfers. Triggered when: (1) user requests handoff/memory/context save, (2) context window approaches capacity, (3) major task milestone completed, (4) work session ending, (5) user says 'save state', 'create handoff', 'I need to pause', 'context is getting full', (6) resuming work with 'load handoff', 'resume from', 'continue where we left off'. Proactively suggests handoffs after substantial work (multiple file edits, complex debugging, architecture decisions). Solves long-running agent context exhaustion by enabling fresh agents to continue with zero ambiguity.

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。

Builds clear, executable, and auditable inclusion and exclusion criteria for biomedical and clinical research protocols. Always use this skill when a user needs to translate a target population into operational screening rules tied to chart fields, time windows, tests, procedures, prior therapies, exclusions, and reviewable edge cases. Focus on protocol-stage precision, ambiguity reduction, auditability, and screening reproducibility rather than generic study design advice.

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Designs primary, secondary, and exploratory endpoints for biomedical and clinical research protocols. Always use this skill when a user needs to translate study aims into operational endpoint definitions with event rules, assessment timing, composite logic, interpretability, and protocol-stage auditability. Focus on endpoint precision, feasibility, clinical meaning, ambiguity reduction, and implementation readiness rather than generic study design advice.

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Structure vague opportunities and unclear briefs into actionable one-page problem statements. Use when asked to clarify a vague brief, frame an undefined problem, make sense of an unclear opportunity, or when the user says 'we need to figure out what to do about X' or 'I've been asked to look into Y'. Produces a structured problem brief with reframed questions, scoped boundaries, and a minimum viable research plan.

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Predict peptide-MHC class II (HLA-DR/DQ/DP) binding and presentation for CD4 T-cell epitopes with NetMHCIIpan-4.3 and MixMHC2pred-2.0. Covers why class II is far less reliable than class I (open binding groove, 9-mer register ambiguity, sparse noisy training data, DR>DP>DQ accuracy asymmetry), the DQ/DP heterodimer alpha/beta pairing trap, and the looser 1%/5% %Rank thresholds. Use when predicting CD4 epitopes for vaccine help, mapping class II neoantigens, or scoring long peptides against DR/DQ/DP. For CD8/class I see mhc-binding-prediction.

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Calls m6A peaks from MeRIP-seq / m6A-seq paired IP-vs-input data using exomePeak2 (transcript-aware, GC-bias-corrected Poisson GLM), MeTPeak (HMM over sliding windows), MACS3/MACS2 with --nomodel --broad --keep-dup all (genome-wide broad alternative), and DRACH motif enrichment via HOMER or ggseqlogo as a sanity check (NOT a filter). Covers BED12 vs narrowPeak output, exonic vs intronic peak handling, multi-tool reconciliation (intersection vs union), the m6A-vs-m6Am ambiguity at 5'UTR peaks that antibody methods cannot resolve, and orthogonal validation (miCLIP/GLORI/m6A-SAC-seq/m6Anet). Use when calling peaks from paired IP/input genome BAMs, choosing exomePeak2 (transcript-aware default) vs MACS3 (broad genomic) vs MeTPeak (HMM-smoothed low-coverage), confirming DRACH enrichment as a sanity check on the peak set, reconciling differing peak sets across tools, validating MeRIP peaks against single-base methods, interpreting 5' peaks where m6Am contamination is possible, or recommending a consensus strategy.

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。

Analyzes base-editing screens for variant function. Covers library design (Hanna 2021 ClinVar-scale CBE screen benchmarked on BRCA1/2, Cuella-Martin 2021 DDR saturation), CBE vs ABE chemistry choice (BE3/BE4 vs ABE7.10/ABE8.20/ABE8e), editing-window math (positions 4-8 from PAM-distal end; 4-7 for ABE7.10), bystander-edit quantification and the variant-call ambiguity it creates, sgRNA-efficiency filtering before hit calling, indel byproduct interpretation, the substitution-vs-indel diagnostic, variant annotation against ClinVar / COSMIC, and the Broad be-validation-pipeline. Use when designing a BE variant screen, choosing CBE vs ABE for a specific edit, interpreting bystander-confounded hits, distinguishing functional signal from indel artifact, integrating CRISPResso2 output with screen scoring, or deciding BE vs PE for SNV installation.

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Annotates ChIP-seq peaks to genomic features, nearest genes, ENCODE candidate cis-regulatory elements (cCREs), and regulatory domains. Uses ChIPseeker (R), HOMER annotatePeaks.pl (CLI), pyranges (Python), GREAT/rGREAT (regulatory domain gene-set enrichment), ChIP-Enrich (locus-length-adjusted), ENCODE SCREEN cCRE classification (PLS/pELS/dELS/CA-CTCF/CA-H3K4me3), and ENCODE-rE2G for cell-type-specific enhancer-gene linking. Handles nearest-TSS vs host-gene ambiguity, promoter window definition, and feature priority. Use when assigning genomic context to peaks, linking enhancer peaks to target genes, classifying peaks against ENCODE cCRE registry, or running gene-set enrichment on peak-associated genes.

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。

Analyzes alternative splicing from PacBio Iso-Seq (HiFi, Kinnex/MAS-Iso-seq) and Oxford Nanopore (direct cDNA, direct RNA, R10.4.1+) long-read RNA-seq with full-isoform resolution. Tools include FLAIR (correct/collapse/quantify/diffSplice for PacBio + ONT), IsoQuant (de-novo or annotation-guided isoform discovery 2024 SOTA), Bambu (annotation-aware Bayesian discovery + quantification with Novel Discovery Rate), SQANTI3 (isoform classification: FSM/ISM/NIC/NNC + artifact flags), rMATS-long (event calling on long-read isoforms), and minimap2 (-ax splice:hq for HiFi; -ax splice -k14 for ONT cDNA; add -uf only for direct RNA or stranded cDNA preps). Solves microexon detection, recursive splicing, complex multi-exon isoforms, and DTU without transcript-quantification uncertainty. Use when short-read AS limitations (anchor length, complex isoforms, microexons, recursive splicing, transcript ambiguity) demand full-isoform resolution.

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。

Design, select, and analyze waveforms for radar, sonar, and active sensing using the Phased Array System Toolbox. Covers LFM, NLFM, FMCW, phase-coded, CW, stepped FM, custom IQ, ambiguity functions, sidelobe reduction, and Doppler tolerance. Key objects: phased.LinearFMWaveform, phased.NonlinearFMWaveform, phased.CustomFMWaveform, phased.PhaseCodedWaveform, phased.FMCWWaveform, phased.SteppedFMWaveform, phased.MFSKWaveform, phased.RectangularWaveform, nlfmspec2freq, shapespectrum, ambgfun, pambgfun, sidelobelevel, legendreseq, mlseq, radarWaveformGenerator.

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。

Clarify intent before RIPER-5 phase delegation. Scores ambiguity (4 signals); generates structured multi-choice questions for Tier 2. Two-mode: SIMPLE and DEEP.

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。

Write reliable prompts for Agentica/REPL agents that avoid LLM instruction ambiguity

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。

Interview the user one question at a time to resolve remaining ambiguity before implementation. Use when planning or brainstorming is done but unknowns remain, or when the user asks to be interviewed about a task or spec.

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Detects and analyzes ambiguous language in software requirements and user stories. Use when reviewing requirements documents, user stories, specifications, or any software requirement text to identify vague quantifiers, unclear scope, undefined terms, missing edge cases, subjective language, and incomplete specifications. Provides detailed analysis with clarifying questions and suggested improvements.

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Query decomposition and multi-source search orchestration. Breaks natural language questions into targeted searches per source, translates queries into source-specific syntax, ranks results by relevance, and handles ambiguity and fallback strategies.

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Think and work like an expert Geophysicist. Use when a task calls for Geophysicist judgment. Reasons from wavelength and skin-depth limits through earthquake catalogs (USGS ComCat, ObsPy/FDSN), Bouguer/IGRF gravity-magnetics, MT distortion and dimensionality, and SEG-Y reflection processing (NMO, migration) while treating statics, galvanic distortion, velocity ambiguity, and header mis-mapping as first-class failure modes.

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。

Think and work like an expert Computer Vision Scientist. Use when a task calls for Computer Vision Scientist judgment. Reasons from image formation, projective geometry (pinhole intrinsics and extrinsics, epipolar/PnP/bundle adjustment, similarity-scale ambiguity), and COCO/LVIS AP mechanics through DINOv3/SigLIP 2 foundation baselines, RF-DETR/YOLO26/SAM 3 models, COLMAP 4/GLOMAP and VGGT geometry, pycocotools/TrackEval/BOP evaluation, and CVPR reporting and EU AI Act limits while treating train–test and pretraining leakage, AP evaluation-setting gaming, preprocessing mismatches (EXIF, BGR, aliased resizing), label noise, and camera-convention and scale errors as first-class failure modes.

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。

Think and work like an expert Air Quality Scientist. Use when a task calls for Air Quality Scientist judgment. Reasons from source emissions through transformation, transport, and dose using SMOKE/MOVES inventories, WRF-driven CTMs like CMAQ and CAMx, PMF/ME-2 apportionment, and concentration-response functions, while treating rotational PMF ambiguity, AOD-to-PM bias in humid regions, uncalibrated low-cost sensors, and untreated wildfire exceptional events as first-class failure modes.

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。

Analyzes base-editing screens for variant function. Covers library design (Sanson 2020 GRACE, Hanna 2021 BRCA1/2 SNV scanning, Cuella-Martin 2021), CBE vs ABE chemistry choice (BE3/BE4 vs ABE7.10/ABE8.20/ABE8e), editing-window math (positions 4-8 from PAM-distal end, wider for ABE8e), bystander-edit quantification and the variant-call ambiguity it creates, sgRNA-efficiency filtering before hit calling, indel byproduct interpretation, the substitution-vs-indel diagnostic, variant annotation against ClinVar / COSMIC, and the Broad be-validation-pipeline. Use when designing a BE variant screen, choosing CBE vs ABE for a specific edit, interpreting bystander-confounded hits, distinguishing functional signal from indel artifact, integrating CRISPResso2 output with screen scoring, or deciding BE vs PE for SNV installation.

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。