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...is that I got 2 datasets from two different methods and I would like to be sure that each method used the same data (3D images) to extract 2 different sets of 3D parameters. Is it clear so far? So I thought about using all.equal() like this: test1 <- data.frame(num=1:10, let1=letters[1:10], let2=letters[1:10]) test2 <- data.frame(num=1:10, let1=letters[1:10], let2=letters[c(1:6, 6, 8:10)]) Since I want to compare only some columns, I do this: > all.equal(test1[,1:2], test2[,1:2]) [1] TRUE > all.equal(test1[,1:3], test2[,1:3]) [1] "Component 3: Attributes: < Component 2...