Generating APA style tables in R: Current challenges

This post reviews some aspects of generating formatted tables using R suitable for inclusion in a manuscript conforming to APA style. I review my current workflow that involves a large amount of manual formatting in Excel. I then discuss what it would take to automate more of these manual steps in R.

Suggestions for how R and RStudio could improve auto-completion and usability of R

RStudio has improved the power of auto-completion in R and generally increased usability. However, there remains the potential to improve discoverability and usability. There are also coding practices that R package authors can adopt both to work better with auto-complete and make the features of their R package more discoverable.  After using and teaching R for the last ten years, this post outlines what I see as major areas for potential improvement.

Customising ProjectTemplate in R

This post talks about my workflow for getting started with a new data analysis project using the ProjectTemplate package.

Using R to replicate common SPSS multiple regression output

The following post replicates some of the standard output you might get from a multiple regression analysis in SPSS. A copy of the code in RMarkdown format is available on github. The post was motivated by this previous post that discussed using R to teach psychology students statistics.

Evaluating the Potential Incorporation of R into Research Methods Education in Psychology

I was recently completing some professional development activities that required me to write a report on a self-chosen topic related to diversity in student backgrounds. I chose to use the opportunity to reflect on the potential for using R to teach psychology students research methods. I thought I'd share the report in case it interests anyone.

Video: knitr, R Markdown, and R Studio: Introduction to Reproducible Analysis

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.

Converting Sweave LaTeX to knitr LaTeX: A case study

The following post documents the steps I needed to take in order to convert a project using Sweave LaTeX into one using knitr LaTeX.

How to Convert Sweave LaTeX to knitr R Markdown: Winter Olympic Medals Example

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.

Example Reproducible Report using R Markdown: Analysis of California Schools Test Data

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.

Getting Started with R Markdown, knitr, and Rstudio 0.96

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 reproducible analysis. 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.

How to plot three categorical variables and one continuous variable using ggplot2

This post shows how to produce a plot involving three categorical variables and one continuous variable using ggplot2 in R.

Getting Started with JAGS, rjags, and Bayesian Modelling

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.

Correlation Resources: SPSS, R, Causality, Interpretation, and APA Style Reporting

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.

Guide to Getting Started with R: 2011 Update

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..

R Optimisation Tips using Optim and Maximum Likelihood

This post summarises some R modelling tips I picked up at AMPC2011.

R versus Matlab in Mathematical Psychology

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.

Reasons for Transitioning to Vim: Bringing LaTeX, R, Sweave and More under One Roof

This post describes the reasons for my transition to Vim.

Video of Reproducible Research with R: Melbourne R Users 1st Dec 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.

R Workflow: Slides from a Talk at Melbourne R Users (1st Dec 2010)

I gave a presentation at Melbourne R Users on the topic of R Workflow. The presentation covered R code organisation, and useful R related tools including Eclipse, StatET, Git, make, Sweave and LaTeX. Also, the slides from the presentation provide links to four complete examples of using R, Sweave, LaTeX, and make.

Sweave Tutorial 3: Console Input and Output - Multiple Choice Test Analysis

This post provides an example of using Sweave to perform an item analysis of a multiple choice test. It is designed as a tutorial for learning more about using Sweave in a mode where console input and output is displayed. Copies of all source code and the final PDF report is provided.