pca with more than one grouping variable
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I want to do a pca plot of 20 samples I measured. For this I used gscatter. However, I want
1) to color my samples with 7 colors for the different type of organisms i measured and in addition
2) I want to give symbols for another variable called, dead or alive where I want to use square for dead and triangles for alive
How can I create a pca plot showing what I described above? do I need to use something else than gscatter?
Jeff Miller on 14 Dec 2021
gscatter will accept multiple grouping variables, in your case organism & dead/alive. There is an example in the gscatter documentation--search for "Scatter Plot with Multiple Grouping Variables". I believe you specify 14 colors and 14 symbols for your 7*2=14 combinations of the two grouping variables.