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]<mailto:[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/CH2PR04MB6617DA282DB100FA9E3EEF4DA2FF9%40CH2PR04MB6617.namprd04.prod.outlook.com.
