No. The pairwise.t.test() function (according to the help file) does a multiplicity of t-tests, on more than two samples, adjusting the p-value to compensate for the multiplicity by various methods.
Thank you, Rolf, that's helpful. So pairwise.t.test() is used for comparison of more than two means. I did, indeed, confuse it with t.test(paired=TRUE). But the documentation, which I valiantly tried to make sense of BEFORE asking my stupid question, is not clear enough for this particular idiot. Might I suggest that the documentation be altered? It could use an example (as in, real-life applied statistical problem) of when pairwise.t.test() ought to be used, and why t.test(paired=TRUE) would be inappropriate in that context; it could also use a reference to some published paper, website or some such that explains the rationale and correct procedure for using this test.
Thanks again for your clairvoyance.
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