Hi Jessica, Yes, that does help. It confirms my digging around in the prcomp object.
I was plotting $x, but wasn't sure whether this was appropriate. Mainly because the data ranges are different in $x than when plotted by biplot() - as I mentioned my reply to Bryan. Do you know if this difference is data range matters? Many thanks, Chris On 07/05/2012 14:24, "Jessica Streicher" <j.streic...@micromata.de> wrote: >That depends on what you want to plot there. Basically, you could just >use plot() with pcaResult$x. You might need to define which PCs you want >to plot there though. > >pcaResult<-prcomp(iris[,1:4]) >plot(pcaResult$x) # gives the first 2 PCs >plot(pcaResult$x[,2:3]) #gives the second vs the 3rd PC > >or if you want to see more you can use pairs() > >pairs(pcaResult$x) > >if you want things colored, theres the col parameter that works for both >functions: > >pairs(pcaResult$x,col=iris[,5]) > >Does this help? > >Am 07.05.2012 um 12:22 schrieb Christian Cole: > >> I have a decent sized matrix (36 x 11,000) that I have preformed a PCA >>on >> with prcomp(), but due to the large number of variables I can't plot the >> result with biplot(). How else can I plot the PCA output? >> >> I tried posting this before, but got no responses so I'm trying again. >> Surely this is a common problem, but I can't find a solution with >>google? >> >> >> The University of Dundee is a registered Scottish Charity, No: SC015096 >> >> ______________________________________________ >> R-help@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/r-help >> PLEASE do read the posting guide >>http://www.R-project.org/posting-guide.html >> and provide commented, minimal, self-contained, reproducible code. > >______________________________________________ >R-help@r-project.org mailing list >https://stat.ethz.ch/mailman/listinfo/r-help >PLEASE do read the posting guide >http://www.R-project.org/posting-guide.html >and provide commented, minimal, self-contained, reproducible code. > The University of Dundee is a registered Scottish Charity, No: SC015096 ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
