Below are links related to knitr in other websites and applications (if you have more, or you do not like your links to be listed here, please feel free to let me know).
Websites
- R learning resources at UCLA by Joshua Wiley et al (dynamically built with knitr)
- One Page R Literate Data Science by Graham Williams
- Reproducible graphics with R and ggplot2 by Baptiste Auguié
- ML/stats notes by John Myles White
- A French introduction to R by Julien Barnier (also see CRAN)
- Applications of R in Business Contest (knitr's entry; announcement)
Solutions
- a knitr Howto page in Vanderbilt Biostatistics Wiki
- Blog with Knitr and Jekyll by Jason C Fisher
- Creating HTML5 slides with RStudio, knitr and pandoc by Gaston Sanchez
- Carl Boettiger has cool blog posts demonstrating how to publish a post to Wordpress.com with knitr and RWordPress purely in R, with images uploaded to Imgur and Flickr respectively
- knitr + cactus + TwitterBootstrap + Jquery by Barry Rowlingson (includes a smart use of jQuery to add links to R functions)
- Interactive reports in R with knitr and RStudio and Interactive HTML presentation with R, googleVis, knitr, pandoc and slidy by Markus Gesmann
- Stacked bar plots with several descriptive nodes by ADP
- Blogging from R to Wordpress by William K. Morris
- A demo on using
tidy=TRUEor the listings environment so code chunks can stay inside page margins (link to StackExchange)
R Packages
- The Github Wiki of the cda package by Baptiste Auguie
- website of ggbio package by Tengfei Yin
- The sampSurf Package by Jeffrey H. Gove
- the RHadoop Wiki by Revolution Analytics
- The ggmcmc package examples by Xavier Fernández-i-Marín
- tabplot: Tableplot, a visualization of large datasets by Martijn Tennekes and Edwin de Jonge (see its PDF vignette)
- the ggplot2 transition guide to version 0.9.0 by Dennis Murphy et al
- a few packages on Bioconductor: ReportingTools and RGalaxy
Courses
- BIOS 301 (Introduction to Statistical Computing) by Chris Fonnesbeck at Vanderbilt University
- Math 344 (Probability and Statistics) by Randall Pruim at Calvin College
- Stat 506 (Advanced Regression) by Jim Robison-Cox at Montana State University
- STT 3820 by Alan T. Arnholt at Appalachian State University
- Math 747 (Topics in math biology) by Ben Bolker at McMaster University
- STAT 319 (Applied Statistics in Science) by Yuan Huang at Penn State University (also see the tutorial Create Dynamic R Statistical Reports Using R Markdown)
- some notes on reproducible research by Aedin Culhane at Harvard
- STAT 622 (Bayesian Data Analysis) by Marina Vannucci at Rice University
- STA613/CBB540 (Statistical methods in computational biology) by Barbara Engelhardt at Duke University
- Stat 590 (Statistical Computing) by Erik Erhardt at University of New Mexico
- STAT 497C (Topics in R Statistical Language) by Eric Nord at Penn State University
Workshops
- Geospatial Data in R and Beyond by Barry Rowlingson
- Broom Spatial R Class by Frank Davenport (PDF)
- Visualizing Categorical Data by Michael Friendly
- ggplot2 workshop notes by Josef Fruehwald for AVML 2012
- R Introduction for UCL PhDs by Florian Oswald at University College London
- Introduction to R lectures for ECPR Winter School 2013 by Zoltán Fazekas, University of Southern Denmark
- R for the brave by Will Pearse
- Introduction to knitr: The R Markdown (Rmd) format by L. Collado Torres for JHSPH Biostat computing club
Books
- The Analysis of Data by Guy Lebanon
- Dynamic Report Generation with R and knitr by Yihui Xie (coming in summer 2013)
- The Statistical Sleuth In R by Nicholas Horton, Kate Aloisio, and Ruobing Zhang
- Regression Modeling Strategies
- Biolostatistical Design and Analysis using R
Papers
- An Introduction to Mediation Analysis by Joshua F. Wiley
Other applications
- RPubs: Easy web publishing from R
- Rcpp Gallery: Articles and code examples for the Rcpp package
- Slidify: reproducible HTML5 slides made easy
- Exams can be dynamically generated with knitr and LyX at JKUAT (KENYA)
Blog posts
- Don't R alone! A guide to tools for collaboration with R by Noam Ross
- Getting Started with R Markdown, knitr, and Rstudio 0.96, How to Convert Sweave LaTeX to knitr R Markdown and Converting Sweave LaTeX to knitr LaTeX: A case study by Jeromy Anglim
- Tools for making a paper by Will Lowe
- Integrate data and reporting on the Web with knitr by me as a guest blog post on Revolution Analytics
- knitr: A flexible R authoring tool (HTML5 slides) by Josef Fruehwald
- Planting seeds of reproducibility with knitr and markdown by Mine Çetinkaya-Rundel (the Citizen-Statistician blog)
- A closer look at "How economists get tripped up by statistics" by Laurie Samuels
- Latex Allergy Cured by knitr
- knitr Performance Report-Attempt 1
- Easier literate programming with R by Christophe Lalanne
- knitR - eine Alternative zu Sweave? by Christian B.
- Better R support in pygments by monkey patching SLexer by f3lix
- 被knitr包给震撼到了 by @xccds
- Reproducible Research by Tom Torsney-Weir (on Vim and Marked)
- 为什么Markdown+R有较大概率成为科技写作主流？ by 阳志平
- Governance Indicators by Russell Shepherd
- Petrol prices adjusted for inflation by Matt Cooper
- Creating beautiful reports from R with knitr by David Smith
- An R-based Research Notebook by Tom Torsney-Weir
- knitR, Markdown, and Your Homework by Jarrett Byrnes
- Color Palettes in HCL Space by Trestle Technology, LLC
- Introduction to R and Biostatistics by Leonardo Collado Torres
- Reproducible Research using R and Bioconductor by Paolo Sonego
- Bioinformaticians Need Lab Notebooks Too by Nacho Caballero
- From OpenOffice noob to control freak: A love story with R, LaTeX and knitr by Christoph Molnar
- Including an interactive 3D rgl graphic in a html report with knitr by Stéphane Laurent
- Create HTML or PDF Files with R, Knitr, MiKTeX, and Pandoc by Justin Meyer
- Reproducible research with R, Knitr, Pandoc and Word by Rolf Fredheim
- Visualizing Farmers' Markets Geo Data using googleVis, plyr, knitr and Markdown using R by Peter Chen
- 2013 NSF Graduate Research Fellowship statistics by Elson Liu