「testing」の検索結果

Identify differentially bound regions across CLIP-seq conditions (knockdown vs control, treatment vs vehicle, disease vs healthy) using DEWSeq (sliding-window DESeq2), Flipper (Skipper-downstream), ASpeak, edgeR, or limma-voom. Use when computing condition-level changes in RBP binding intensity, choosing peak-level vs window-level vs crosslink-level testing, designing replicate experiments, or distinguishing biological binding shifts from technical confounders.

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Detect positive (diversifying / episodic / pervasive) selection using codon dN/dS frameworks. Implements PAML codeml site models (M0/M1a/M2a/M7/M8/M8a), branch models, branch-site model A (Zhang 2005), and HyPhy methods (BUSTED, BUSTED-S, BUSTED-MH, BUSTED-PH, MEME, FEL, FUBAR, aBSREL, SLAC, RELAX, GARD, FUBAR-MH). Includes McDonald-Kreitman framework (asymptotic alpha, impMKT, polyDFE, DFE-alpha, GRAPES) for within-species + divergence inference, RERconverge for trait-correlated rate shifts, CSUBST for convergent substitution, and PhyloAcc for accelerated noncoding evolution. Use when testing adaptive evolution at codons, branches, or full gene; running GARD recombination pre-screen; controlling alignment-error and gBGC false positives; reconciling PAML vs HyPhy results; or performing genome-scale selection scans.

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Detect, date, and contextualize whole-genome duplication (WGD / paleopolyploidy) events using wgd v2 (Chen et al 2024), KsRates (Sensalari 2022 substitution-rate-corrected Ks dating), DupGen_finder (Qiao 2019), MAPS (Li 2018 phylogenomic), POInT (Conant 2008 ordered-block), SLEDGe (2024 ML-based), Whale.jl (Bayesian DL+WGD), and synteny-anchored paranome construction. Use when identifying ancient polyploidy from Ks distributions and synteny block analysis, positioning WGD events relative to speciation, distinguishing tandem from segmental from WGD duplications, dating the 2R/3R vertebrate / fish / salmonid WGDs, building paranome and Ks-age mixture models, applying KsRates substitution-rate correction across lineages, or testing alternative biased-fractionation / dosage-balance models post-WGD.

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Cross-method decision tree for calling hits in pooled CRISPR screens. Catalogs statistical models (MAGeCK RRA, MAGeCK MLE, BAGEL2, drugZ, JACKS, Chronos, CERES), experimental designs each is built for, failure modes outside design domain, reconciliation when methods disagree, multiple-testing and effect-size thresholds, the order of operations (count -> QC -> CN-correct -> hit-call -> validate), the second-best-sgRNA conservative rule, and consensus-hit strategy. Use when choosing among MAGeCK / BAGEL2 / drugZ / JACKS / Chronos for a given design, reconciling disagreement across two or three methods on the same screen, deciding whether to require consensus, gating downstream validation by hit-confidence tier, or interpreting unstable hit lists across reruns.

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Build and analyze pangenomes for prokaryotes (Panaroo, PPanGGOLiN, PEPPAN, GET_HOMOLOGUES, anvi'o pangenomics) and eukaryotes (Minigraph-Cactus, PGGB, vg pangenome graphs). Implement Tettelin core/accessory/cloud genome decomposition (Tettelin 2005), Heap's law open/closed pangenome modeling, gene presence/absence GWAS (Scoary, pyseer), pangenome graph variant calling (vg, PanGenie), and structural-variation graph indexing. Use when assembling species- or genus-level pan-gene catalogs, separating core from accessory/shell/cloud genes, testing gene-content associations with phenotypes, building pangenome graphs from haplotype-resolved assemblies, calling SVs from pangenome graphs, or selecting between bacterial-pangenome and eukaryotic-pangenome workflows.

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Tests associations between categorical variables in clinical data using chi-square, Fisher's exact, Boschloo, Cochran-Mantel-Haenszel, and modern McNemar variants with calibrated confidence intervals (Wilson, Newcombe, Miettinen-Nurminen). Use when analyzing categorical outcomes, paired binary endpoints, or testing treatment-outcome independence in confirmatory or exploratory clinical trials.

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Implements multiplicity control for confirmatory clinical trials using graphical procedures (Bretz-Maurer-Hommel), gatekeeping (parallel, serial, mixed), Hochberg/Hommel/Holm with PRDS, and the closed-testing principle (Marcus-Peritz-Gabriel; Goeman 2021 admissibility). Covers FDA Multiple Endpoints Final Guidance (October 2022), graphical procedures via R gMCP, primary + key-secondary + subgroup hierarchies, and FWER vs FDR distinction. Use when designing the multiplicity strategy for confirmatory trials with multiple primary or key secondary endpoints.

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Detects allele-specific transcription factor or histone modification binding from heterozygous-variant ChIP-seq using WASP (reference-bias filter; mandatory upstream), RASQUAL (joint QTL + bias-corrected testing), BaalChIP (Bayesian beta-binomial with copy-number-aware overdispersion), and AlleleSeq (personalized diploid genome). Handles imprinted-locus awareness, X-inactivation artifacts, cancer copy-number imbalance, and integration with downstream caQTL / bQTL mapping. Use when identifying variants with allelic effects on TF binding, fine-mapping causal regulatory variants, validating deep-learning variant predictions, or characterizing cis-acting regulatory effects.

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Estimate causal effects of an exposure on an outcome from GWAS summary statistics using genetic instruments. Implements IVW (fixed/random), MR-Egger, weighted median/mode, MR-RAPS, CAUSE, GSMR-HEIDI, MR-PRESSO, MVMR, MR-Clust, LCV, and LHC-MR via TwoSampleMR, MendelianRandomization, MR-PRESSO, cause, and lhcMR. Use when testing causal direction between traits, evaluating drug-target effects via cis-pQTL/cis-eQTL, performing multivariable mediation MR, distinguishing causation from correlated horizontal pleiotropy, or producing STROBE-MR-compliant sensitivity batteries.

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Decompose total effects into direct and indirect paths through mediators using mediation, CMAverse 4-way, HIMA/HIMA2 high-dimensional, BAMA, two-step / MVMR mediation, or double-ML medDML. Use when testing whether a molecular phenotype (expression, methylation, protein) mediates a treatment-outcome relationship, decomposing exposure-mediator interaction via VanderWeele 4-way, screening high-dimensional EWAS mediators, or running MR-based mediation when sequential ignorability is implausible.

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Use when implementing, testing, or evaluating ANY Apple Intelligence, on-device AI, or speech-to-text feature. Covers Foundation Models, @Generable, LanguageModelSession, Tool protocol, eval suites, model-as-judge scoring, SpeechTranscriber, CoreML.

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Implement and review Apple TipKit feature-discovery UI for iOS 17+ apps. Use when adding or auditing in-app tips, contextual help, coach marks, Tip, TipView, popoverTip, rules, events, actions, display frequency, testing overrides, reusable tip identifiers, or iOS 18+ TipGroup and CloudKit tip sync; avoid for generic SwiftUI navigation or layout outside tip presentation.

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Implement, review, or improve in-app purchases and subscriptions using StoreKit 2. Use when building paywalls with SubscriptionStoreView or ProductView, processing transactions with Product and Transaction APIs, verifying entitlements, handling purchase flows (consumable, non-consumable, auto-renewable), implementing offer codes or promotional/win-back/introductory offers, managing subscription status and renewal state, setting up StoreKit testing with configuration files, or integrating Family Sharing, Ask to Buy, refund handling, and billing retry logic.

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Formats and parses locale-aware numbers, decimals, currencies, percentages, dates, durations, measurements, names, lists, byte counts, and URLs with Foundation FormatStyle and ParseableFormatStyle. Use when replacing legacy Formatter subclasses, designing reusable format APIs, using SwiftUI Text(_:format:), correcting availability, or testing user-facing formatted output across locales.

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Build and audit SwiftUI, UIKit, and AppKit accessibility for VoiceOver, Voice Control, Switch Control, Full Keyboard Access, Dynamic Type, focus restoration, labels/traits/actions, traversal, custom rotors, NSAccessibility, XCTest checks, adaptive system preferences, and App Store accessibility declarations. Use when implementing accessible UI, fixing an accessibility audit, testing assistive-technology behavior, or substantiating App Store Accessibility Nutrition Labels.

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Transfer app data to or from other platforms using AppMigrationKit. Use when implementing system-orchestrated one-time migration between iOS and Android or another platform, building an AppMigrationExtension, packaging transportable resources with ResourcesArchiver, importing resources on the destination device, reporting import progress, handling migration errors and app group cleanup, checking MigrationStatus, or testing migration code with AppMigrationTester.

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Implement, review, or improve localization and internationalization in iOS/macOS apps — String Catalogs (.xcstrings), generated localizable symbols, stable key naming, LocalizedStringKey, LocalizedStringResource, pluralization, FormatStyle for numbers/dates/measurements, right-to-left layout, Dynamic Type, and locale-aware formatting. Use when adding multi-language support, setting up String Catalogs, enabling generated symbols for compile-time-safe localization keys, handling plural forms, formatting dates/numbers/currencies for different locales, testing localizations, or making UI work correctly in RTL languages like Arabic and Hebrew.

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Build CarPlay-enabled apps using the CarPlay framework. Use when creating navigation, audio, communication, EV charging, parking, or food ordering apps for the car display, working with CPTemplateApplicationScene, CPInterfaceController template hierarchies, CPListTemplate, CPMapTemplate, CPNowPlayingTemplate, configuring CarPlay entitlements, or integrating with CarPlay Simulator for testing.

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High-converting landing pages — campaign pages, collection pages, seasonal promos, A/B testing

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Audit and optimize e-commerce landing pages for conversion. CTA placement, trust signals, page structure, copy optimization, and A/B testing strategy for product pages, collection pages, and campaign landing pages.

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Viking Search tuning for specified policy directions. Use this when the user provides specific queries, a type of query, or a business policy direction, and asks to boost, suppress, or fix a class of search results through request-parameter passthrough. You must only perform read-only baseline evaluation and request-level candidate testing; do not modify search scenes, app config, dictionaries, recommend scenes, or primary recall parameters.

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Model, simulate, and optimize Serializer/Deserializer (SerDes) systems — serial and parallel links — using MATLAB SerDes Toolbox. Design NRZ and PAM-N links (PAM3 through PAM16) — explore equalization architectures (FFE, CTLE, DFE), sweep or optimize parameters with genetic algorithms, and characterize channels from loss models, S-parameter files, or crosstalk scenarios. Process captured waveforms through equalization chains, build eye diagrams, and decompose jitter. Deliver IBIS-AMI models for Tx, Rx, Redriver, or Retimer by exporting to Simulink and compiling .ami/.ibs/.dll/.so files. Covers the full arc from initial design exploration and parameter optimization to compliance testing and compiled model validation, including custom datapath blocks for nonstandard equalization.

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Generate 3GPP-compliant 5G NR downlink and uplink baseband waveforms. Use to create NR signals, test model (TM) waveforms, fixed reference channels (FRC), test and measurement (T&M) signals, or test vectors for conformance testing. Covers configuring data, control, and broadcast channels and signals: PDSCH, PUSCH, PDCCH, PUCCH, SRS, SSBurst, CSI-RS, DM-RS, PT-RS, CORESET, and BWP parameters including bandwidth, subcarrier spacing (SCS), modulation (QPSK, QAM), numerology, FR1, FR2, TDD, FDD, and multi-bandwidth-part setups. Use for signal generation, RF instrument playback, or IQ baseband synthesis. Requires 5G Toolbox.

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Run MATLAB test suites and analyze results, including test filtering, parallel execution, result diagnostics, code coverage collection, gap analysis, and CI/CD with buildtool. Use when running tests, filtering test suites, analyzing test failures, checking, collecting, or analyzing coverage, justifying uncovered code, or configuring CI pipelines. Do NOT use for writing, generating, or structuring tests. Do NOT use for Simulink coverage or Simulink testing workflows.

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