「asi」の検索結果

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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Prioritizes rare-disease variants from trio/quad WES/WGS with de novo (DeNovoGear, Triodenovo), compound-heterozygous phasing (WhatsHap), mosaic VAF tiering, phenotype-driven ranking (Exomiser, Phen2Gene, AMELIE), ClinGen gene-disease validity gating, and ACMG SF v3.2 secondary findings reporting. Use when running diagnostic exome / genome pipelines, identifying candidate Mendelian disease genes, screening for incidental findings, or auditing VUS reclassification cycles. The ACMG/AMP classification framework (PVS1 decision tree, Pejaver PP3/BP4 calibration, Tavtigian point system) is in clinical-databases/acmg-classification.

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View, convert, and understand SAM/BAM/CRAM alignment files using samtools and pysam. Use when inspecting alignments, converting between formats, or understanding alignment file structure.

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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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Use when implementing caching, session storage, rate limiting, or any Redis integration. Covers cache-aside pattern, key naming, TTL strategy, and serialization config.

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Improve unclear UX copy, error messages, microcopy, labels, and instructions to make interfaces easier to understand. Use when the user mentions confusing text, unclear labels, bad error messages, hard-to-follow instructions, or wanting better UX writing.

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Guidelines for modern Avalonia UI layout using Zafiro.Avalonia, emphasizing shared styles, generic components, and avoiding XAML redundancy.

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Advogado especialista em todas as areas do Direito brasileiro: familia, criminal, trabalhista, tributario, consumidor, imobiliario, empresarial, civil e constitucional.

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Advogado criminalista especializado em Maria da Penha, violencia domestica, feminicidio, direito penal brasileiro, medidas protetivas, inquerito policial e acao penal.

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Stripped-back design emphasizing whitespace, clean typography, and restrained color for maximum clarity and focus.

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Single-track / single-episode music-player mockup template — glassmorphic iOS-Music style player card with ambient album-art wash, for showcasing one song, one podcast episode, or one audio jingle as a shareable interactive surface.

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Structured, enterprise-focused design system emphasizing clarity, consistency, and efficiency for data-dense web applications.

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Improve code structure, readability, and maintainability without changing external behavior through systematic refactoring techniques like extracting functions, removing duplication, simplifying conditionals, and applying design patterns. Use when reducing technical debt, extracting functions or classes, removing code duplication, simplifying complex conditionals, renaming for clarity, applying design patterns, improving code organization, reducing coupling, increasing cohesion, or maintaining test coverage during structural improvements.

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Autonomous Reforge-guided refactor workflow for the Humans repository. Use when the user wants Codex to target a section such as Shifts, Users, Teams, Tickets, Camps, or Store, create a dedicated worktree/branch from origin/main, run iterative architecture-focused improvements, score each stage with Reforge, gate commits through a score-blind read-only architecture review, append score and verdict details to commit messages after review acceptance, push progress, and open a PR when the loop reaches stasis.

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When the user wants to apply psychological principles, mental models, or behavioral science to marketing. Also use when the user mentions 'psychology,' 'mental models,' 'cognitive bias,' 'persuasion,' 'behavioral science,' 'why people buy,' 'decision-making,' 'consumer behavior,' 'anchoring,' 'social proof,' 'scarcity,' 'loss aversion,' 'framing,' or 'nudge.' Use this whenever someone wants to understand or leverage how people think and make decisions in a marketing context.

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Prepare safe production launches — pre-launch checklist, monitoring, staged rollout, and rollback. Load when deploying to production, releasing a major change, opening beta access, or the user asks for a launch checklist, go-live plan, rollout strategy, or rollback plan. Not for local-only prototypes. Pairs with ci-cd-and-automation and app-security-hardening.

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Score an unbuilt business idea on desirability, viability, feasibility, distribution wedge, why-now, founder-market-fit, market size, alternatives, defensibility, capital intensity, and regulatory/ethical risk — and return a GO / ITERATE / KILL verdict with kill criteria and a next kill test. Load when the user asks to evaluate a business idea, score a startup idea, screen an idea, decide whether to pursue this venture, do an idea review, or says "is this a good business idea", "should I build this", "evaluate this startup", "screen this idea", "go/no-go on this idea", "kill or pursue". Sub-skill of `venture-exploration`. Calls `fermi` for sizing, `assumption-mapping` for hidden beliefs, optional `pre-mortem` / `adversarial-hat` for high-stakes ideas. Does NOT evaluate built products — for that use `reality-check`.

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Write a rigorous, decision-grade experiment spec — falsifiable hypothesis, primary metric, guardrails, randomisation unit, exposure definition, method (A/B, holdout, switchback, quasi-experiment, MAB), MDE/duration plan, peek policy, validity threats, and pre-committed decision rule. Platform-agnostic. Load when the user has a candidate experiment and needs to spec it before launch, or says "spec this experiment", "write the test plan", "design this A/B test", "what's the hypothesis", "how big a sample do we need", "how long should we run this", "define the metrics for this test", or when the experimentation orchestrator routes here.

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Simplify application code for clarity without changing behavior — refactor after tests pass, reduce nesting and duplication, match project conventions. Load when refactoring for readability, cleaning up after a feature ships, or when code review flags complexity. Also triggers on "simplify this code", "code simplification", "make this easier to read", "reduce complexity", "refactor for clarity". Not for compress/split/prune-skill (skill-library files). Pairs with technical-debt-audit.

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。

Guidelines for modern Avalonia UI layout using Zafiro.Avalonia, emphasizing shared styles, generic components, and avoiding XAML redundancy.

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。

Advogado especialista em todas as areas do Direito brasileiro: familia, criminal, trabalhista, tributario, consumidor, imobiliario, empresarial, civil e constitucional.

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。

Advogado criminalista especializado em Maria da Penha, violencia domestica, feminicidio, direito penal brasileiro, medidas protetivas, inquerito policial e acao penal.

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。

Turns Hi-C/Micro-C FASTQ into a deduplicated, filtered .pairs file with pairtools and decides whether the library worked. Covers the bwa mem -SP5M / bwa-mem2 / chromap --preset hic alignment idiom (mates mapped as independent single-end reads), pairtools parse vs parse2 and the walks-policy choice (5unique pairwise vs all for Pore-C/Micro-C concatemers), pair-type classification (keep UU and rescued UC), dedup (PCR vs optical/by-tile), select by pair_type/MAPQ/distance, restriction-fragment handling (restrict, Arima dual-enzyme, Micro-C/DNase fragment-free), and allele-specific phasing (pairtools phase to two coolers). The library-QC decision uses % long-range cis as the one-number quality metric, trans as the noise floor, orientation balance as fragment-map-free dangling-end/self-circle QC, and % duplicates as a complexity proxy. Use when processing Hi-C/Micro-C/Omni-C reads into pairs, judging library quality, handling multi-enzyme or restriction-agnostic protocols, or generating allele-specific contacts.

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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.

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。