CODEWITHSUNDEEP
rpca
Angelo
Angelo

Reputation: 5069

PCA plots with labels and different colors

I have a correlation matrix, that looks like this:

          A        B         C        D        E
A  1.00000000  0.08076432 -0.11462447 -0.10395283 -0.27033234
B   0.08076432  1.00000000 -0.05978118 -0.06478300 -0.11423989
C   -0.11462447 -0.05978118  1.00000000 -0.03884304 -0.09946262
D  -0.10395283 -0.06478300 -0.03884304  1.00000000  0.01411555
E  -0.27033234 -0.11423989 -0.09946262  0.01411555  1.00000000

I am doing pca and plotting it (all in R):

PCA<-princomp(cor_matrix)
names(PCA)
PCA$sdev
plot(PCA$scores[,1:2])

Now, how can i get in the labels with different colors along with the legend.

Thank you

Upvotes: 0

Views: 7050

Answers (1)

MrFlick
MrFlick

Reputation: 206566

You can do something like this

groups <- factor(rownames(PCA$scores))
plot(PCA$scores[,1:2], col=groups)
legend(0,0,groups, col=groups, pch=1)
text(PCA$scores[,1:2], labels=groups, pos=3)

Those are all base plotting functions. You may wish to tweak the default settings to make your plot look prettier. To do so, read the help pages for each of those functions.

enter image description here

Upvotes: 2

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