[R] How do you distinguish between characters on a pco plot?

leannehaggerty leannehaggerty at gmail.com
Thu Mar 22 18:15:56 CET 2012

I have a presence/absence matrix for which I create a distance matrix and
then perform pco analysis on. 

table <- read.table("matrix.pa")
dist <- dist(table, method = "euclidean", diag = FALSE, upper = FALSE)
dist.pco <- pco(dist)/

When I plot the pco analysis of the distance matrix I want to be able to
distinguish between certain characters, for example if the distance matrix
looks like:


1, 2, 3 and 4 are the characters to be plotted. I'd like 1 and 2 to appear
as the same shape/ colour on the plot, different from 3 and 4. Is it
possible to do this?

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