Hi All, I am going to suggest that when people want any sort of "phylogenetic residuals" they do some checking on their own to try to verify what, exactly, they are getting. Here's one check you can do. Compute phylogenetically independent contrasts for two traits. Perform a regression (through the origin, of course) of one trait on the other. Save the residuals. Compare them with the "phylogenetic residuals" you get from some other program that does a PGLS regression (not with any transformation of the branch lengths). Let us know what you find!
Cheers, Ted Theodore Garland, Jr., Professor Department of Biology University of California, Riverside Riverside, CA 92521 Office Phone: (951) 827-3524 Facsimile: (951) 827-4286 (not confidential) Email: tgarl...@ucr.edu http://www.biology.ucr.edu/people/faculty/Garland.html http://scholar.google.com/citations?hl=en&user=iSSbrhwAAAAJ Director, UCR Institute for the Development of Educational Applications Editor in Chief, Physiological and Biochemical Zoology Fail Lab: Episode One http://testtube.com/faillab/zoochosis-episode-one-evolution http://www.youtube.com/watch?v=c0msBWyTzU0 ________________________________________ From: R-sig-phylo [r-sig-phylo-boun...@r-project.org] on behalf of Sergio Ferreira Cardoso [sff.card...@campus.fct.unl.pt] Sent: Wednesday, June 24, 2015 9:21 AM To: R phylo mailing list mailing list Subject: [R-sig-phylo] phyres function R package caper Dear all, When I try to get a list os phylogenetic residuals using phyres function from R package I get this message: Error: could not find function "phyres". Does anyone know how to solve this problem? > phyres(fit.gls1) Error: could not find function "phyres" Best regards, Sérgio. -- Com os melhores cumprimentos, Sérgio Ferreira Cardoso. -------------------- Best regards, Sérgio Ferreira Cardoso MSc. Paleontology candidate Departamento de Ciências da Terra - FCT /Universidade Nova de Lisboa Geociências - Universidade de Évora Lisboa, Portugal [[alternative HTML version deleted]] _______________________________________________ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/ _______________________________________________ R-sig-phylo mailing list - R-sig-phylo@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-phylo Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
