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Dynamic documents with R and knitr / Yihui Xie

Author
Xie, Yihui (Mathematician)
Published
Boca Raton, FL : CRC Press, [2014]
Physical Description
xxv, 190 pages : illustrations ; 24 cm.
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Contents
Machine generated contents note: 2.1.Literature -- 2.2.Good and Bad Practices -- 2.3.Barriers -- 3.1.Setup -- 3.2.Minimal Examples -- 3.2.1.An Example in LATEX -- 3.2.2.An Example in Markdown -- 3.3.Quick Reporting -- 3.4.Extracting R Code -- 4.1.RStudio -- 4.2.LYX -- 4.3.Emacs/ESS -- 4.4.Other Editors -- 5.1.Input Syntax -- 5.1.1.Chunk Options -- 5.1.2.Chunk Label -- 5.1.3.Global Options -- 5.1.4.Chunk Syntax -- 5.2.Document Formats -- 5.2.1.Markdown -- 5.2.2.LATEX -- 5.2.3.HTML -- 5.2.4.reStructuredText -- 5.2.5.Customization -- 5.3.Output Renderers -- 5.4.R Scripts -- 6.1.Inline Output -- 6.2.Chunk Output -- 6.2.1.Chunk Evaluation -- 6.2.2.Code Formatting -- 6.2.3.Code Decoration -- 6.2.4.Show/Hide Output -- 6.3.Tables -- 6.4.Themes -- 7.1.Graphical Devices -- 7.1.1.Custom Device -- 7.1.2.Choose a Device -- 7.1.3.Device Size -- 7.1.4.More Device Options -- 7.1.5.Encoding -- 7.1.6.The Dingbats Font -- 7.2.Plot Recording -- 7.3.Plot Rearrangement -- 7.3.1.Animation -- 7.3.2.Alignment -- 7.4.Plot Size in Output -- 7.5.Extra Output Options -- 7.6.The tikz Device -- 7.7.Figure Environment -- 7.8.Figure Path -- 8.1.Implementation -- 8.2.Write Cache -- 8.3.When to Update Cache -- 8.4.Side Effects -- 8.5.Chunk Dependencies -- 8.5.1.Manual Dependency -- 8.5.2.Automatic Dependency -- 9.1.Chunk Reference -- 9.1.1.Embed Code Chunks -- 9.1.2.Reuse Whole Chunks -- 9.2.Code Externalization -- 9.2.1.Labeled Chunks -- 9.2.2.Line-based Chunks -- 9.3.Child Documents -- 9.3.1.Input Child Documents -- 9.3.2.Child Documents as Templates -- 9.3.3.Standalone Mode -- 10.1.Chunk Hooks -- 10.1.1.Create Chunk Hooks -- 10.1.2.Trigger Chunk Hooks -- 10.1.3.Hook Arguments -- 10.1.4.Hooks and Chunk Options -- 10.1.5.Write Output -- 10.2.Examples -- 10.2.1.Crop Plots -- 10.2.2.rgl Plots -- 10.2.3.Manually Save Plots -- 10.2.4.Optimize PNG Plots -- 10.2.5.Close an rgl Device -- 10.2.6.WebGL -- 11.1.Design -- 11.1.1.The Engine Function -- 11.1.2.Engine Options -- 11.2.Languages and Tools -- 11.2.1.C++ -- 11.2.2.Interpreted Languages -- 11.2.3.TikZ -- 11.2.4.Graphviz -- 11.2.5.Highlight -- 12.1.Chunk Options -- 12.1.1.Option Aliases -- 12.1.2.Option Templates -- 12.1.3.Program Chunk Options -- 12.1.4.Code in Appendix -- 12.2.Package Options -- 12.3.Typesetting -- 12.3.1.Output Width -- 12.3.2.Message Colors -- 12.3.3.Box Padding -- 12.3.4.Beamer -- 12.3.5.Suppress Long Output -- 12.3.6.Escape Special Characters -- 12.3.7.The Example Environment -- 12.4.Utilities -- 12.4.1.R Package Citation -- 12.4.2.Image URI -- 12.4.3.Upload Images -- 12.4.4.Compile Documents -- 12.4.5.Construct Code Chunks -- 12.4.6.Extract Source Code -- 12.4.7.Reproducible Simulation -- 12.4.8.R Documentation -- 12.4.9.Rst2pdf -- 12.4.10.Package Demos -- 12.4.11.Pretty Printing -- 12.4.12.A Macro Preprocessor -- 12.5.Debugging -- 12.6.Multilingual Support -- 13.1.RStudio -- 13.2.Pandoc -- 13.3.HTML5 Slides -- 13.4.Jekyll -- 13.5.WordPress -- 14.1.Homework -- 14.2.Web Site and Blogging -- 14.2.1.Vistat and Rcpp Gallery -- 14.2.2.UCLA R Tutorial -- 14.2.3.The cda and RHadoop Wiki -- 14.2.4.The ggbio Package -- 14.2.5.Geospatial Data in R and Beyond -- 14.3.Package Vignettes -- 14.3.1.PDF Vignette -- 14.3.2.HTML Vignette -- 14.4.Books -- 14.4.1.This Book -- 14.4.2.The Analysis of Data -- 14.4.3.The Statistical Sleuth in R -- 15.1.Sweave -- 15.1.1.Syntax -- 15.1.2.Options -- 15.1.3.Problems -- 15.2.Other R Packages -- 15.3.Python Packages -- 15.3.1.Dexy -- 15.3.2.Python TEX -- 15.3.3.IPython -- 15.4.More Tools -- 15.4.1.Org-mode -- 15.4.2.SASweave -- 15.4.3.Office -- A.1.Documentation -- A.2.Closures -- A.3.Implementation -- A.3.1.Parser -- A.3.2.Chunk Hooks -- A.3.3.Option Aliases -- A.3.4.Cache -- A.3.5.Compatibility with Sweave -- A.3.6.Concordance -- A.4.Syntax.
Summary
"Preface We import a dataset into a statistical software package, run a procedure to get all results, then copy and paste selected pieces into a typesetting program, add a few descriptions and finish a report. This is a common practice of writing statistical reports. There are obvious dangers and disadvantages in this process: 1. it is error-prone due to too much manual work; 2. it requires lots of human efforts to do tedious jobs such as copying results across documents; 3. the workflow is barely recordable especially when it involves GUI (Graphical User Interface) operations, therefore it is difficult to reproduce; 4. a tiny change of the data source in the future will require the author(s) to go through the same procedure again, which can take nearly the same amount of time and effort; 5. the analysis and writing are separate, so close attention has to be paid to the synchronization of the two parts; In fact, a report can be generated dynamically from program code. Just like a software package has its source code, a dynamic document is the source code of a report. It is a combination of computer code and the corresponding narratives. When we compile the dynamic document, the program code in it is executed and replaced with the output; we get a final report by mixing the code output with the narratives. Because we only manage the source code, we are free of all the possible problems above. For example, we can change a single parameter in the source code, and get a different report on the fly."--
"Suitable for both beginners and advanced users, this book shows you how to write reports in simple languages such as Markdown. The reports range from homework, projects, exams, books, blogs, and web pages to any documents related to statistical graphics, computing, and data analysis. While familiarity with LaTeX and HTML is helpful, the book requires no prior experience with advanced programs or languages. For beginners, the text provides enough features to get started on basic applications. For power users, the last several chapters enable an understanding of the extensibility of the knitr package."--
Subject(s)
ISBN
9781482203530 (pbk.)
1482203537 (pbk.)
1482203545 (PDF ebook)
9781482203547
Note
"A Chapman & Hall book".
Bibliography Note
Includes bibliographical references and index.
View MARC record | catkey: 11528599