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概要と使いどころ
ProteoDisco is an R package to facilitate proteogenomics studies. It houses functions to create customized (variant) protein databases based on user-submitted genomic variants, splice-junctions, fusion genes and manual transcript sequences. The flexible workflow can be adopted to suit a myriad of research and experimental settings.
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Gene Set Variation Analysis (GSVA) is a non-parametric, unsupervised method for estimating variation of gene set enrichment through the samples of a expression data set. GSVA performs a change in coordinate systems, transforming the data fr
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Intuitive framework for identifying spatially variable genes (SVGs) via edgeR, a popular method for performing differential expression analyses. Based on pre-annotated spatial clusters as summarized spatial information, DESpace models gene expression using a negative binomial (NB), via edgeR, with spatial clusters as covariates. SVGs are then identified by testing the significance of spatial clusters. The method is flexible and robust, and is faster than the most SV methods. Furthermore, to the
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Multivariate methods are well suited to large omics data sets where the number of variables (e.g. genes, proteins, metabolites) is much larger than the number of samples (patients, cells, mice). They have the appealing properties of reducin
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Expert knowledge for Azure AI Anomaly Detector development including troubleshooting, best practices, limits & quotas, configuration, and deployment. Use when tuning Docker-based Anomaly Detector, ACI or IoT Edge deployments, univariate/multivariate APIs, or service limits, and other Azure AI Anomaly Detector related development tasks. Not for Azure AI Metrics Advisor (use azure-metrics-advisor), Azure Monitor (use azure-monitor), Azure Machine Learning (use azure-machine-learning).
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Framework for running single-variable cold email experiments. Defines experiment types (list-only, copy-only, combined), confidence weighting, minimum sample sizes, and success criteria. Use when the user wants to improve a campaign, test a new list vs old one, or compare copy variants. Prevents the
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Adds Smartlead-compatible spintax to cold email sequences for deliverability. Use this skill whenever the user asks to add spintax, spin text, add variations, or improve deliverability of email copy — especially when they mention Smartlead, cold email sequences, or paste HTML email content. Also trigger when the user says "spintax", "spin", "variations", "deliverability spintax", or references adding randomized alternatives to email copy. Works with both plain text and HTML input.
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Upload a CSV of leads + a variants YAML (produced by /campaign-copywriting) to Smartlead as a DRAFT campaign. Handles tag-scoped inbox selection, A/B/C variant assembly, custom field mapping, schedule config, and batch lead upload. ALWAYS creates in DRAFT — you review in Smartlead UI and hit Start manually. Use after /campaign-copywriting, just before the campaign goes live.
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Design, plan, and analyze A/B tests with statistical rigor. Use when the user asks about A/B testing, split testing, experiment design, statistical significance, sample size calculation, test duration, multivariate testing, or conversion experiments. Trigger phrases include "A/B test", "split test", "experiment", "statistical significance", "sample size", "test duration", "which version wins", "conversion experiment", "hypothesis test", "variant testing".
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Environment variables validation and ConfigModule setup. Use when validating environment variables with Joi/Zod or configuring ConfigModule in NestJS.
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Load and validate application configuration from environment variables and config files. Use when managing Go application config with environment variables or viper.
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Find similar vulnerabilities and bugs across codebases using pattern-based analysis. Use when hunting bug variants, building CodeQL/Semgrep queries, analyzing security vulnerabilities, or performing systematic code audits after finding an initial issue.
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Creates language variants of existing Semgrep rules. Use when porting a Semgrep rule to specified target languages. Takes an existing rule and target languages as input, produces independent rule+test directories for each language.
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프로젝트 루트에 DESIGN.md를 부트스트랩 — 실제 기업 레퍼런스 중 컨텍스트 매칭으로 추천하고 선택된 레퍼런스의 톤&매너를 보존한 variation을 생성. DESIGN.md 부재 상태에서의 UI 작업 또는 '디자인 시스템 세팅', 'set up our design system', 「デザインシステムを作って」, 「建立設計系統」류의 요청에 트리거. CLAUDE.md / AGENTS.md / Cursor rule shim도 함께 설치.
Extract design tokens, text styles, and variables from a Figma design system and produce a design-tokens.json plus ready-to-use QML singletons. Use this skill whenever someone wants to pull their design system out of Figma — whether they say "export tokens from Figma", "get design tokens", "set up my design system", "read our Figma design system", "get Figma variables into QML", "pull our color palette from Figma", "import design tokens", "extract colors/typography/spacing from Figma", or similar. Trigger this skill at the start of any design-system workflow that involves a Figma source.
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Manage Azure DevOps projects, work items, repos, PRs, pipelines, wikis, test plans, security alerts, variable groups, environments/approvals, branch policies, and attachments. Use when user asks to: manage sprints, create/update work items, list repos, create PRs, run pipelines, search code, manage wiki pages, check security alerts, manage variable groups, approve deployments, or configure branch policies. Covers 13 domains with 99 tools via REST API.
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Adversarially review something just built — presume it is broken and find where. Use after implementing a feature, finishing a build, or before shipping, or whenever ATLAS or Boss wants a hostile second opinion on a diff, a running app, or a whole codebase. Spawns clean-context reviewers with opposing lenses (correctness, security, empty-world) and reproduces every finding by running the target before believing it. Distinct from /code-review, which statically reads a diff and never runs the app.
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Set up Tailwind v4 with shadcn/ui using @theme inline pattern and CSS variable architecture. Four-step pattern: CSS variables, Tailwind mapping, base styles, automatic dark mode. Prevents 8 documented errors. Use when initializing React projects with Tailwind v4, or fixing colors not working, tw-animate-css errors, @theme inline dark mode conflicts, @apply breaking, v3 migration issues.
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Build UI with Core's shadcn/Base UI system. Use for selecting, installing, composing, or customizing shadcn/ui, registry items, themes, and wrappers. Always preserve exact style `base-maia`, Zinc-oriented semantic CSS-variable tokens, and Base UI primitives. Do not use to switch styles, run `shadcn init`, or introduce Radix/React Aria. Pair with `packages/ui/AGENTS.md`.
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Annotate and filter VCF variants with SnpEff and SnpSift. SnpEff predicts functional effects (HIGH/MODERATE/LOW/MODIFIER), genes, transcripts, AA changes, HGVS; SnpSift filters and adds ClinVar/dbSNP. Java CLI with Python subprocess integration. Use ANNOVAR for multi-database annotation; Ensembl VEP for REST API; SnpEff for fast CLI with pre-built genomes.
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GATK Best Practices for germline SNP/indel calling from WGS/WES BAMs. Per-sample HaplotypeCaller GVCFs, GenomicsDBImport, GenotypeGVCFs joint calling, VQSR or hard filters. Requires BWA-MEM2-aligned, markdup, BQSR BAMs. Use DeepVariant for a faster DL alternative; GATK is the NIH/ENCODE standard.
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Query COSMIC for cancer somatic mutations, gene census, mutational signatures, drug resistance variants. REST API v3.1 supports gene/sample/variant queries; free registration. For germline use clinvar-database; for drug-target data use opentargets-database or chembl-database-bioactivity.
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CLI for VCF/BCF: filter, merge, annotate, query, normalize, compute stats. Core post-variant-calling: quality filtering, multi-sample merging, rsID annotation, genotype extraction. Samtools companion in HTSlib. Use GATK for complex indel realignment during calling; use VCFtools for population genetics stats.
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Query RegulomeDB v2 GET REST API to score variants for regulatory function and retrieve overlapping evidence (TF binding, histone marks, DNase peaks, footprints, motifs, eQTLs, chromatin state). Scores range 1a (strongest) to 7 (none). Use for GWAS hit prioritization, regulatory variant annotation, cis-regulatory discovery. Use clinvar-database for pathogenicity; gwas-database for trait associations.
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