I recently started using R and I have a simple question. I am running R (v.
2.12.1) and Rcmdr (v.1-6.3) on Mac (Snow Leopard).

I am using a data set I used before for practicing ANOVA with R, so I know
what the results should look like. I can get ANOVA table using both Rcmdr
and GUI. However, I cannot make R prepare the ANOVA diagram (with boxplots, showing the data points, including the outliers) for the dataset. If I use Rcmdr (Models>Graphs) then I get some graphical representation for the ANOVA model I prepared in R (showing diagnostic plots, Q-Q plots, etc.). However, the real ANOVA diagram is not coming up. I tried using "plot" command in GUI but did not get what I wanted. I could not find an answer to this on-line or in my book. I apologize if this was covered recently in the mailing list, I
just became a member.

Note that it is possible to do any Rcmdr "menu operation" from the command line simply by typing the command line output that results from doing the menu operation in Rcmdr. Observe the red text in the output window. The Rcmdr package supplies not only the Menu driven window, but some functions to accomplish the operations of the Window. Observe the red text in the output window.

Assuming you want an "interaction plot" for 2-factor ANOVA and following on from Sarah's example paste the following code at the command line. Note that it makes use of the Rcmdr convenience function plotMeans() so you need the Rcmdr package loaded:

 library(Rcmdr)
 fakedata <- runif(100)
 fakegroups <- sample(rep(letters[1:5], each=20))
 factor2 = sample(rep(letters[1:2], each=50))
 plotMeans(df$data, df$groups, df$factor2, error.bars="se")

For more information on how to use this function from the command line see its help file by typing
?plotMeans


Hope you can generalize this if you were actually asking a different question. See posting guide for best practices on providing a reproducible example of what you want to accomplish.

Rob

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