Friday, March 15, 2013
Monday, July 23, 2012
This post discusses the creation of beamer presentations using a combination of markdown, pandoc, and LaTeX. This workflow offers the potential to reduce typing and increase readability of beamer presentation source code. Source code for an example presentation is provided containing markdown and LaTeX source code along with a makefile for building the beamer PDF.
Thursday, July 19, 2012
This post presents the video of a talk that I presented in July 2012 at Melbourne R Users on using knitr, R Markdown, and R Studio to perform reproducible analysis. I also provide links to a github repository where the R markdown examples can be examined and the slides can be downloaded.
Sunday, June 10, 2012
Monday, June 4, 2012
The following post shows how to manually convert a Sweave LaTeX document into a knitr R Markdown document. The post (1) reviews many of the required changes; (2) provides an example of a document converted to R Markdown format based on an analysis of Winter Olympic Medal data up to and including 2006; and (3) discusses the pros and cons of LaTeX and Markdown for performing analyses.
Friday, May 18, 2012
This is a quick set of analyses of the California Test Score dataset. The post was produced using R Markdown in RStudio 0.96. The main purpose of this post is to provide a case study of using R Markdown to prepare a quick reproducible report. It provides examples of using plots, output, in-line R code, and markdown. The post is designed to be read along side the R Markdown source code, which is available as a gist on github.
Thursday, May 17, 2012
This post examines the features of R Markdown
using knitr in Rstudio 0.96.
This combination of tools provides an exciting improvement in usability for
Specifically, this post
(1) discusses getting started with R Markdown and
knitr in Rstudio 0.96;
(2) provides a basic example of producing console output and plots using R Markdown;
(3) highlights several code chunk options such as caching and controlling how input and output is displayed;
(4) demonstrates use of standard Markdown notation as well as the extended features of formulas and tables; and
(5) discusses the implications of R Markdown.
This post was produced with R Markdown. The source code is available here as a gist.
The post may be most useful if the source code and displayed post are viewed side by side.
In some instances, I include a copy of the R Markdown in the displayed HTML, but most of the time I assume you are reading the source and post side by side.
Thursday, May 3, 2012
This post shows how to produce a plot involving three categorical variables
and one continuous variable using
ggplot2 in R.
Wednesday, April 11, 2012
This post provides links to various resources on getting started with Bayesian modelling using JAGS and R. It discusses: (1) what is JAGS; (2) why you might want to perform Bayesian modelling using JAGS; (3) how to install JAGS; (4) where to find further information on JAGS; (5) where to find examples of JAGS scripts in action; (6) where to ask questions; and (7) some interesting psychological applications of Bayesian modelling.
Friday, February 17, 2012
There is now a new website for researchers to ask and answer questions on topics related to psychology and cognitive science. The site is cogsci.stackexchange.com. From the success of earlier released sites in the Stack Exchange network such as those on programming, statistics, and latex, the site for psychology and cognitive science has the potential be a great resource for researchers. I'm actively contributing on the site. So, if you are a researcher in psychology, I hope you'll check it out. The rest of this post sets out (a) a little history of Stack Exchange question and answer sites as they relate to psychology and statistics; (b) why I think this new site for psychology and cognitive science has so much potential; and (c) why, if you are a professional or student researcher in psychology, you might want to get involved.
Sunday, July 24, 2011
Undergraduate psychology students often ask me about careers in organisational psychology. This post aims to provide a few links and resources to assist such students to learn about the profession and the career pathways. The post includes (a) a basic description of organisational psychology, (b) links to Australian educational and professional society resources, (c) discussion of PhD and academic options, and (d) additional resources to learn more about the profession.
Sunday, July 17, 2011
This post provides links to a range of resources related to the use and interpretation of correlations. I wanted to provide a page with links to a number of additional resources that would be useful both for those of my students who might be keen to learn more and for anyone else who might be interested. Specifically, this post provides links to: (a) introductory book-style chapters on correlation, (b) resources related to assorted issues in correlation (i.e., discussion of causal inference, correlation with various variable types, range restriction, statistical power, correlation interpretation, and significance testing), (c) tutorials on computing correlations using SPSS and R, and (d) tips for reporting correlations in APA Style.
Monday, May 23, 2011
This post discusses my experience migrating to Ubuntu from Windows from the perspective of a quantitatively oriented researcher in psychology. It discusses (a) my general transition to open source tools for doing research; (b) examination of Cygwin; (c) choosing a Linux distribution; (d) preparing for installation of Ubuntu; (e) initial reflections on installing Ubuntu; and (f) a long list of various solutions to specific problems that I encountered whilst getting started with Ubuntu.
Wednesday, May 4, 2011
In mid-2009, I wrote a post on getting started with R. A lot has happened in the world of R over the last two years. New books, videos, online documentation, blogs and other resources have emerged. New community structures have emerged. As such I've given the guide a major overhaul both to increase its usability and acknowledge the many exciting changes in the world of R. The updated Guide to Getting Started with R is available here..
Monday, April 25, 2011
Case Study in Customising Syntax Highlighting and Folding in Vim for a Niche Scripting Language Called Inquisit
This post presents my efforts to setup a productive environment for editing Inquisit scripts in Vim. In addition to being relevant to people who write Inquisit scripts, the post is designed as a general case study in customising Vim for a niche programming language. Specifically, the post discusses how to setup in Vim: (a) code folding using a custom expression, (b) custom syntax highlighting, and (c) interactions with the command-line.
Saturday, April 16, 2011
This post discuses using Vim as an outlining tool. It focuses particularly on VimOutliner. In particular the post (a) discusses reasons why I like outlining tools, (b) presents some links for getting started and installing VimOutliner, (c) presents my verdict on the personal utility of VimOutliner, and (d) presents an assortment of little issues that I encountered and resolved while learning to use VimOutliner.
Wednesday, March 30, 2011
Monday, February 21, 2011
This post summarises some R modelling tips I picked up at AMPC2011.
I recently attended the 2011 Australasian Mathematical Psychology Conference. This post summarises a few thoughts I had on the use of R, Matlab and other tools in mathematical psychology flowing from discussions with researchers at the conference.
Tuesday, January 11, 2011
This post describes the reasons for my transition to Vim.
Tuesday, December 28, 2010
Monday, December 13, 2010
As previously mentioned I gave a talk at Melbourne R Users Group titled "Reproducible Research and R Workflow". It covered technologies including LaTeX, Sweave, R, make, Eclipse, and git. This post shares the video.
Thursday, December 2, 2010
Tuesday, November 30, 2010
Monday, November 29, 2010
This post documents an example of using Sweave
to generate individualised personality reports based on
responses to a personality test.
Each report provides information on both the responses of the general
sample and responses of the specific respondent.
All source code is provided, and selected aspects are discussed,
makefiles use of
\Sexpr, figures, and LaTeX tables using Sweave.
(a) installing Git using the Eclipse plugin Egit. (b) uploading repositories to GitHub, and (c) links to resources on Git, Git and LaTeX, and Git and R. The focus is on version control for people working on R, Sweave, and LaTeX related projects.
Saturday, November 27, 2010
Tuesday, November 23, 2010
makefiles. In particular it describes how to set up
makeon Windows with an emphasis on using
makein Eclipse on projects involving R, Sweave, and LaTeX.
Friday, November 12, 2010
This post sets out how to calculate confidence intervals for correlations using R. Because I often get this question from people unfamiliar with R, it assumes no prior knowledge of R.