Hi @WarrenKuhfeld, Thanks so much for your reply and the blog post. For now, I am able to create the graph I am looking for using prinqual. However, I still would like to learn how to overlay score plot on loading plot in princomp. As for my data prinqual is eliminating near zero variables and princomp is keeping the near zero variables, they are both showing two different results for my analysis. Also, for example: In PLS analysis, if I want to overlay, XSCORES on XLOADINGPLOT. Or XSCORES on XWEIGHTPLOT. It helps me with more tools to be able to modify my data. If there is any literature regarding this, please suggest me. Thanks again for your help.
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