Thanks for your kind reply. I can see the phylogenetic tree (class phylo) and its nodes following the steps that you suggested. However, I wanted to observe the nodes of the phylogenetic PCA plot (not class phylo). I now managed to conduct a more detailed zooming at different points of the plot by adjusting the axes' scales, although I don't know if there is any other manner of visualizing the plot.
My best regards, *Dra. Mariana Díaz-Santana-Iturrios* *ORCID 0000-0002-5253-5395* El sáb, 30 abr 2022 a las 13:13, Adams, Dean [EEOB] (<[email protected]>) escribió: > Mariana, > > > > In R, objects of the class ‘phylo’ have a particular structure to the > manner in which nodes are labeled. The easiest way to see these is to do > this: > > > > library(ape) > > plot(phylo) > > nodelabels() > > > > Dean > > > > Dr. Dean C. Adams (he/him) > > Distinguished Professor of Evolutionary Biology > > Director of Graduate Education, EEB Program > > Department of Ecology, Evolution, and Organismal Biology > > Iowa State University > > https://faculty.sites.iastate.edu/dcadams/ > > phone: 515-294-3834 > > > > *From:* [email protected] <[email protected]> *On > Behalf Of *Mariana Díaz Santana Iturrios > *Sent:* Saturday, April 30, 2022 12:00 PM > *To:* [email protected] > *Subject:* [MORPHMET2] Help with Geomorph function gm.prcomp > > > > Hello everyone, > > > > I used the gm.prcomp on otolith shape data and a fish phylogeny, the > resulting plot is attached in this email. > > > > I extracted the component "ancestors" from the gm.prcomp function in an > excel sheet to be able to observe ancestral shapes at each node. However, > as you may corroborate in the image, the plot is super entangled and hence > I have not been able to visually match the nodes and ancestral shape data. > > > > I have tried to sort of "zoom" the plot by modifying the axes' scales but > the plot remains entangled on the whole. I am wondering if any of you could > give me some directions on the matter. > > > > Thank you in advance for your attention. > > > > *Dra. Mariana Díaz-Santana-Iturrios* > > *ORCID 0000-0002-5253-5395* > > -- > You received this message because you are subscribed to the Google Groups > "Morphmet" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > To view this discussion on the web visit > https://groups.google.com/d/msgid/morphmet2/CAPmxoqREt%2ByPd7h5C_567aye5v9ivC5kJJksAQZ14ns32sBjng%40mail.gmail.com > <https://groups.google.com/d/msgid/morphmet2/CAPmxoqREt%2ByPd7h5C_567aye5v9ivC5kJJksAQZ14ns32sBjng%40mail.gmail.com?utm_medium=email&utm_source=footer> > . > -- You received this message because you are subscribed to the Google Groups "Morphmet" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To view this discussion on the web visit https://groups.google.com/d/msgid/morphmet2/CAPmxoqTzT9O1uqC%2Bn7DTfOOx95DyVv18s4ee7m7DnDX0XMrE3A%40mail.gmail.com.
