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I've looked at the code for matrix multiplies in R, and found that it can speeded up quite a bit, for multiplies that are really vector dot products, and for other multiplies in which the result matrix is small. Here's my test program: u <- seq(0,1,length=1000) v <- seq(0,2,length=1000) A2 <- matrix(2.1,2,1000) A5 <- matrix(2.1,5,1000) B3 <- matrix(3.2,1000,3) A4 <-