從零安裝到基因體學進階——16 章節完整覆蓋 R 語言核心、資料分析、視覺化、統計、Bioconductor 與 omics 工作流，每章皆有互動模擬與 WebR 即時執行。
From installation to genomics — 16 chapters covering R fundamentals, data analysis, visualization, statistics, Bioconductor, and omics workflows. Every chapter includes interactive simulations and live WebR execution.
建議按 Tier 1 → 5 順序學習。每頁包含：概念說明 → 互動模擬 → R 程式碼（可執行）→ 自我檢測。右上角可切換中／英文。
Recommended order: Tier 1 → 5. Each page contains: concepts → interactive sim → runnable R code → self-check quiz. Toggle zh/en in the top-right.
標示 ⚡ 的程式碼框可直接修改並執行，無需安裝任何軟體。第一次點擊「執行」會載入約 30MB 的 WebR runtime（之後同頁不再重載）。
Code blocks marked ⚡ are editable and runnable in-browser — no install required. First click loads ~30MB WebR runtime (cached for the rest of the page).
WebR 適合速試。實際分析請在本機 RStudio 中執行——本教程詳述工作目錄、套件管理、檔案路徑等繁瑣細節，照著做就能立刻上手。
WebR is great for quick tests. Real analysis belongs in a local RStudio — this tutorial walks through working directories, package management, and file paths so you can hit the ground running.
R + RStudio 安裝、版本管理、Windows 路徑、工作目錄、套件安裝、Bioconductor 設定。
Install R + RStudio, version management, Windows paths, working directory, packages, Bioconductor setup.
運算子、變數、資料型別、向量化、控制流程、函式定義。
Operators, variables, types, vectorization, control flow, functions.
vector、matrix、list、data.frame、tibble、factor 與 S4 物件入門。
vector, matrix, list, data.frame, tibble, factor, and intro to S4.
CSV/TSV/Excel/RDS/RData/fst/HDF5、相對路徑、here 套件、跨平台技巧。
CSV/TSV/Excel/RDS/RData/fst/HDF5, relative paths, the here package, cross-platform tips.
dplyr 五大動詞、tidyr pivoting、purrr 函數式編程、pipe 操作。
dplyr's five verbs, tidyr pivoting, purrr functional programming, the pipe.
圖形語法、geom 家族、facet、theme、patchwork 拼圖、出版品級調整。
Grammar of graphics, geoms, facets, themes, patchwork, publication tweaks.
t-test、Wilcoxon、ANOVA、線性與廣義線性模型、多重檢定校正 (FDR)。
t-test, Wilcoxon, ANOVA, linear & generalized linear models, multiple testing (FDR).
Kaplan-Meier 曲線、log-rank 檢定、Cox 比例風險迴歸、survminer 視覺化。
Kaplan-Meier curves, log-rank test, Cox PH regression, survminer plots.
BiocManager、SummarizedExperiment、GenomicRanges、Biostrings 核心物件。
BiocManager, SummarizedExperiment, GenomicRanges, Biostrings core objects.
DESeq2 / edgeR / limma-voom 完整流程、count → DEGs → 視覺化。
DESeq2 / edgeR / limma-voom full pipeline, counts → DEGs → visualization.
clusterProfiler、GO / KEGG / Reactome、ORA 與 GSEA、結果視覺化。
clusterProfiler, GO/KEGG/Reactome, ORA & GSEA, result visualization.
ComplexHeatmap、pheatmap、EnhancedVolcano、出版品級配色與註解。
ComplexHeatmap, pheatmap, EnhancedVolcano, publication-grade palettes & annotations.
VCF 解析 (vcfR/VariantAnnotation)、SNPRelate、GWAS、Manhattan plot。
VCF parsing (vcfR/VariantAnnotation), SNPRelate, GWAS, Manhattan plots.
Illumina 450K/EPIC array、minfi、ChAMP、DMP/DMR 偵測。
Illumina 450K/EPIC array, minfi, ChAMP, DMP/DMR detection.
peak 註解 (ChIPseeker)、差異結合 (DiffBind)、motif 分析。
Peak annotation (ChIPseeker), differential binding (DiffBind), motif analysis.
R for Data Science (Wickham)、Advanced R (Wickham)、Bioinformatics Data Skills (Buffalo)、Modern Statistics for Modern Biology (Holmes & Huber)。
R for Data Science (Wickham), Advanced R (Wickham), Bioinformatics Data Skills (Buffalo), Modern Statistics for Modern Biology (Holmes & Huber).
CRAN (cran.r-project.org)、Bioconductor (bioconductor.org)、tidyverse.org、posit.co (RStudio 母公司)。
CRAN, Bioconductor, tidyverse.org, posit.co (RStudio's parent).
Bioconductor support forum、Stack Overflow [r] tag、GitHub issues、各套件 vignette (browseVignettes())。
Bioconductor support forum, Stack Overflow [r] tag, GitHub issues, package vignettes (browseVignettes()).
各章對應的工具原始論文、CRAN/Bioconductor 套件 vignette、最佳實踐綜述與延伸討論。
Original tool papers, CRAN/Bioconductor vignettes, best-practice reviews, and extended notes for each chapter.
涵蓋各章主題的單選、多選、是非題，內建錯題複習、隨機練習與進度紀錄。
Single-choice, multi-select, and true/false questions across all chapters — with wrong-answer review, random practice, and progress tracking.