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James Anderson wrote: > Hi, > > I am trying to plot the score plot of the first 2 PCs. I used the > following commands for plotting: > > plot(PCA, main="PCA" ) > colors=c(rep("red",10), rep("green",10)) > text(PCA,labels =' ',col = colors ) > > However, in the text command line, if I use the above command, it > only plots those points without any colors. What I wanna plot is that > the first 10 samples plotted in blue squares, the other 10 samples > plotted in magenta dots, how to do this? Assuming PCA is a data.frame or matrix holding your data, you probably want to reverse things. colors <- rep(c("red","green"), each = 10) plot(PCA, main="PCA", pch = rep(15:16, each = 10), col = colors) HTH, Jim > > Thanks, > > James > > > > > > > > --------------------------------- > > [[alternative HTML version deleted]] > > _______________________________________________ Bioconductor mailing > list Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor Search the > archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.