I came across a puzzling “File ‘/pkg/DESCRIPTION’ is out of date” error when updating an R-package of mine on R-Forge today. I was pretty sure the version number and date were correct. I couldn’t figure out any other issue, so I made a copy of my documents, checked out the code again, and copied the modified files back. All worked. I’m still a bit puzzled as I only use one machine for this, but who cares if the code is working…
The excellent R package brms works well with multiple imputations from the excellent R package mice. Today I ran across “Error: Argument ‘data’ must be coercible to a data.frame.” and I couldn’t find anything on the web. As is usually the case, this was a silly error on my side: I used brm(…) instead of brm_multiple(…).
I have written about several free alternatives to SPSS, including PSPP, Jamovi, and JASP. Bob Munchen has reviewed a few more options: Deducer, RKWard, Rattle, and the good old R Commander (in the screenshot on the left). We also find a review of Blue Sky Statistics. Blue Sky Statistics is another option for those seeking SPSS “simplicity” with R power underneath.
Blue Sky Statistics is available for Windows, and is open source. They make money from paid support. I note that it comes with a polished interface and this data editor that reminds us of Excel. I was very happy to see that Blue Sky Statistics offers many options for data handling, like recoding, merging, computing variables, or subsetting — that’s much better than what say jamovi offers at the moment.
The dialogs are quite intuitive if you are familiar with SPSS, and they can also produce R code. This is a feature we know from the R Commander, and ostensibly the aim is to allow users to wean from the graphical interface and move to the console. Nice as the idea is, it is defeated by custom commands like
BSkyOpenNewDataset() that we don’t normally use.
The models offered by Blue Sky Statistics are fine for many uses — for those not living on the cutting edge. A nice touch are the interactive tables in the output, where you can customize to some degree.
Exciting as Blue Sky Statistics and other GUI are at first sight, I’m gradually becoming less excited about GUI for R. Probably the biggest challenge is the “hey, this is all text!” shock when you first open R (or typically Rstudio these days). Once you realize that the biggest challenge is to make the right choices and then interpret your results, you become less hung up about the “right” software. Once you realize that you’ll have to remember either way — where to click, or what to type — copying and pasting code fragments becomes less daunting. If you restrict yourself to a few basic commands like
summary(), R isn’t that difficult. Sure, when you come across idiosyncrasies because different developers use different naming conventions, R can be hard. But then, there are also the moments where you realize that there are so many ready-made solutions (i.e. packages) available and that with R you really are in control of your analysis. And the day you learn about replication and knitr, there’s hardly a way back.
One reason I kept looking for GUI was my MA students. I’m excited to see more and more of them choosing Rstudio over SPSS (they are given the choice, we’re currently use both in parallel)… so I there might be simply no need for turning R into SPSS.
Correlations are some of the basics in quantitative analysis, and they are well suited for graphical examination. Using plots we can see whether it is justified to assume a linear relationship between the variables, for example. Scatter plots are our friends here, and with two variables it is as simple as calling plot() in R:
If we have more than two variables, it can be useful to plot a scatter plot matrix: multiple scatter plots in one go. The pairs() command is built in, but in my view not the most useful one out there. Here we use cbind() to combine a few variables, and specify that we don’t want to see the same scatter plots (rotated) in the upper panel.
pairs(cbind(var1, var2, var3, var4) , upper.panel=NULL)
A more flexible method is provided in library(car) with the scatterplotMatrix(). If this is not flexible enough, we can always split the plot and draw whatever we need, but that’s not for today.
library(car)scatterplotMatrix(cbind(var1, var2, var3, var4))
If we have many more variables, it’s necessary to draw multiple plots to be able to see what is going on. However, sometimes after having checked that the associations are more or less linear, we’re simply interested in the strength and direction of the correlations for many combinations of variables. I guess the classic approach is staring at a large table of correlation coefficients, but as is often the case, graphics can make your life easier, in this case library(corrplot):
This is certainly more pleasant than staring at a table…
For all these commands, R offers plenty of ways to tweak the output.
Today I wondered how to remove an annotation in RQDA. It turns out, all you have to do is click on the annotation to view it, remove the text of the annotation (completely), and then save it.