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Analyzes pooled CRISPR screens with MAGeCK (Li et al 2014), covering count generation (mageck count), the RRA two-condition workflow (mageck test using alpha-RRA over per-sgRNA negative-binomial p-values), the MLE multi-condition workflow (mageck mle with explicit design matrix and beta-score output), normalization choice (median vs total vs control-sgRNA vs spike-in), sgRNA efficiency injection, paired-sample testing, time-course design, drug-screen versus dropout-screen design matrices, MAGeCKFlute and MAGeCK-VISPR downstream visualization, and decision logic for when to use MAGeCK vs JACKS / BAGEL2 / drugZ / Chronos. Use when running a fresh CRISPR screen analysis, picking RRA vs MLE for the experimental design, choosing a normalization method from QC signatures, debugging MLE convergence failure or NaN beta scores, comparing MAGeCK output across tools, or building a batch-aware multi-cell-line / multi-condition MLE design matrix.

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Quantify homologous recombination deficiency (HRD) from tumor copy number using the three genomic-scar metrics — loss of heterozygosity (LOH), large-scale state transitions (LST), and telomeric allelic imbalance (TAI) — with scarHRD, and via the whole-genome HRDetect and CHORD models. Covers the genomic instability score, the PARP-inhibitor clinical context, whole-genome-doubling correction, and the scar-versus-state distinction. Use when computing an HRD score for PARP-inhibitor eligibility, deriving LOH/LST/TAI scars from allele-specific copy number, deciding between scar-based and mutational-signature HRD methods, or interpreting an HRD result in a BRCA-reverted or low-purity tumor.

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Maps GWAS-implicated loci to candidate effector (causal) genes by integrating variant-to-gene (V2G) features via Open Targets L2G (Mountjoy 2021), MAGMA gene-based association (de Leeuw 2015), FUMA SNP2GENE, cS2G combined SNP-to-gene scores (Gazal 2022), Polygenic Priority Scores (PoPS, Weeks 2023), FLAMES, INQUISIT, DEPICT, and enhancer-gene predictors (ABC, ENCODE-rE2G). Use when narrowing a GWAS lead locus to a candidate causal gene, picking between proximity, eQTL-based, and similarity-based prioritizers, integrating multi-evidence streams (fine-mapping, colocalization, ABC enhancer-gene, distance, chromatin), reconciling discordant L2G vs PoPS calls, prioritizing tissue-specific eQTL evidence, or triangulating across at least three independent lines of evidence for a publication-grade effector-gene nomination.

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Generate Euro NCAP test scenarios and variants using the ADT Euro NCAP support package. Use when creating NCAP seed scenarios, generating variants, translating between drivingScenario and RoadRunner, plotting scenario descriptors, computing NCAP scores, or exporting reports. Triggers on: ncapScenario, euroAssessment, getScenario, getScenarioDescriptor, generateVariants, ScenarioDescriptor, ScenarioDescriptorPlot, ncapScore, ncapReport, exportReport, configureVUT, assessmentTable, Euro NCAP, CCRs, CCRm, CCRb, CCFtap, CCCscp, CPNA, CPFA, CBNA, variant generation.

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Score translated content for publication: quality, brand voice, market compliance. "is this German translation ready to publish"

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Score one piece via eval-runner on six dimensions with a fix list. Many pieces → eval-suite. "score this draft before it ships"

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Build RL reward signals using the OpenJudge framework. Covers choosing between pointwise and pairwise reward strategies based on RL algorithm, task type, and cost; aggregating multi-dimensional pointwise scores into a scalar reward; pairwise tournament reward for GRPO on subjective tasks (net win rate across group rollouts); generating preference pairs for DPO/RLAIF; and normalizing scores for training stability. Use when building reward models, scoring rollouts for GRPO/REINFORCE, generating preference data for DPO, or doing Best-of-N selection.

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Audits a legal document against legal design principles. Scores the document on six pillars: language patterns (bureaucratese, archaisms, passive voice, nominalization), readability (Flesch Reading Ease and language-specific equivalents), structure and navigation, hidden conditions (material obligations buried away from their headings), statutory duplication (restating the law instead of citing it), and visual hierarchy where layout is available. Assessment-only; does not rewrite the document. Works on English, French, and German documents, inferring the applicable jurisdiction from the document's language and textual signals: governing-law clause, statute citations, party addresses. Use when a user shares a legal document (contract, NDA, T&C, privacy policy, internal policy) asking how good the drafting is from a legal design perspective, whether it is readable, whether it contains buried clauses or restates the law, or how it scores on Flesch / LIX / Amstad / Kandel-Moles readability metrics.

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This package aims to integrate GWAS-derived SNPs and coexpression networks to mine candidate genes associated with a particular phenotype. For that, users must define a set of guide genes, which are known genes involved in the studied phenotype. Additionally, the mined candidates can be given a score that favor candidates that are hubs and/or transcription factors. The scores can then be used to rank and select the top n most promising genes for downstream experiments.

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Provides R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs). The following nucleases are supported: SpCas9, AsCas12a, enAsCas12a, and RfxCas13d (CasRx). The available on-target cutting efficiency scoring methods are RuleSet1, Azimuth, DeepHF, DeepCpf1, enPAM+GB, and CRISPRscan. Both the CFD and MIT scoring methods are available for off-target specificity prediction. The package also provides a Lindel-derived score to predict the probability of a gRNA to

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MsCoreUtils defines low-level functions for mass spectrometry data and is independent of any high-level data structures. These functions include mass spectra processing functions (noise estimation, smoothing, binning, baseline estimation),

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Stage-by-stage audit of an app's App Store growth machinery against a 54-item P0–P9 playbook — every item scored from an App Store Connect MCP call, a codebase check, or an explicit question to the user, then routed to the skill or command that fixes it. Read-only on App Store Connect. Use for a growth audit or scorecard, a pre-launch growth plan, a quarterly re-audit, or "which growth levers am I missing."

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Daily on-page and technical SEO audit of every page on a site - discovers URLs from the sitemap, scores each page, adds cross-page checks (duplicate titles, canonicals, sitemap gaps), diffs against yesterday, and sends the score line plus any regressions

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Operate managed Aeon instances from memory/instances.json - health-check, dispatch, and status snapshots (control), plus a fleet scorecard of runs, tokens, cost, and reliability (scorecard).

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Pre-send quality scorecard for any lead list. Grades duplicate rate, title diversity, bad-title patterns, catch-all domain density, ICP fit, email verification coverage. Outputs a letter grade + action items BEFORE you send. Catches bad lists before they burn inboxes. Run after email enrichment, before Smartlead upload.

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Plan, build, and optimize Google Ads campaigns — Search, Shopping, Performance Max, Display, and YouTube — including keyword research, match types, bidding strategy, Quality Score, ad extensions, conversion tracking, and ROAS optimization. Use when the user says "Google Ads", "Google advertising", "Google campaign", "search ads", "Google Shopping", "Performance Max", "PMax", "Google Display", "YouTube ads", "keyword targeting", "Google Ads strategy", "Google Ads optimization", "Google Ads account", "Google Ads not working", "search campaign", "Quality Score", "bidding strategy", "Google conversion tracking", or wants to run or improve paid advertising on Google.

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Pull Google Ads performance data and generate reports. Use when asked about ad campaign performance, keyword costs, quality scores, ROAS, conversion tracking, or ad spend analysis. Trigger phrases: "google ads", "adwords", "campaign performance", "ad spend", "quality score", "CPC report", "ROAS", "ad conversion", "keyword performance", "google ads report".

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Write Google Ads copy and build campaign structures. Use when the user asks to create Google Ads, write ad copy for search or display, set up PPC campaigns, optimize Quality Score, choose bidding strategies, or generate responsive search ads. Trigger phrases include "Google Ads", "PPC", "search ads", "display ads", "Performance Max", "ad copy", "headlines and descriptions", "keyword match types", "ad extensions", "Quality Score".

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Score product remarkability 1-10 to decide if it's worth promoting. Seth Godin's Purple Cow test. Triggers on: "is this product worth promoting", "should I promote", "product audit", "purple cow", "remarkable product", "is it remarkable", "rate this product", "product quality check", "worth my reputation", "product evaluation", "would I recommend without commission", "product remarkability score", "evaluate this affiliate product", "quality gate for promotion".

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Dung khi can ra soat CAU HINH tai khoan quang cao mot cach he thong — 6 khau tu account, campaign, adset, creative, landing den tracking, cham Health Score 0-100 va liet ke Quick Wins. Kich hoat khi user nhac 'audit tai khoan ads', 'kiem tra tai khoan quang cao', 'health score ads', 'tai khoan chay kem qua', 'setup ads co dung khong', 'review tai khoan Meta'. Ho tro Meta, TikTok, Google, Zalo Ads. Khong dung cho — chan doan nhanh tai sao so xau thi dung skill 03-danh-gia-hieu-suat; lap ngan sach ky moi thi dung skill 54-media-plan.

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Weekly, on a Friday, read only everywhere. Scores the week from the ledgers with a source beside every number, replays the browser flows the other routines depend on, names one thing to kill and one thing to scale, and files both as cards. It sends only where you released the channel, spends only where you released it, never touches a credential, and never writes a number it did not measure.

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A complete marketing department in one skill. Website and landing-page audits with weighted 0-100 scores, copywriting with panel scoring and AI-slop removal, an 18-tactic ad hook engine, GEO/AEO for getting cited by ChatGPT/Perplexity/AI Overviews, paid-ads creative diagnosis and production briefs, email sequences, LinkedIn/X writing, launch playbooks, positioning and offer design, competitor teardowns, app store optimization, honest analytics and test design. Use for ANY marketing task — audit, write, rewrite, diagnose, score, plan, launch, position, price, analyze — whenever the user mentions marketing, growth, conversion, copy, ads, hooks, CPM, ROAS, SEO, GEO, email, social, landing pages, funnels, launches, competitors, brand, positioning, pricing, or app stores, or says "my landing page sucks", "nobody's converting", "why are my CPMs up", "AI doesn't recommend us", "write me 20 hooks". Route via the table inside; fan out subagents for multi-dimensional work. Not for pure engineering, legal, or finance.

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统计与机器学习异常值检测工具。读取结构化表格数据，使用 IQR、Z-score、IsolationForest 或分组标准差一致性方法识别异常值，输出带异常标记、删除异常行或裁剪异常值后的结果文件。 当用户提到异常值检测、离群值识别、IQR、Z-score、IsolationForest、按实验组/分类组检查数值一致性等需求时使用此skill。 即使用户没有明确说出“statistical_outlier_detector”，只要任务涉及结构化数值字段异常识别或分组均值标准差一致性检查，就应该使用此skill。 不负责字段固定阈值上下限校验、枚举值校验、时间序列缺失/频率校验或格式转换。

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Score an existing reader-facing deliverable and emit a deterministic PASS/FAIL scorecard plus bounded repair plan; use after synthesis, not to rewrite content.

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。