Ariadne, The remaining components of the procedure in Mitteroecker et al. (2004) involve calculating the common allometric and residual shape components (CAC & RSC respectively), and then visualizing allometric trends using a series of plots: CAC vs. size, RSC1 vs. CAC, etc. While the plot of size-shape space Carmelo mentioned is not 'canned' in an R function as far as I am aware, these latter components of the procedure are available in geomorph's plotAllometry function.
Best, Dean Dr. Dean C. Adams Professor Department of Ecology, Evolution, and Organismal Biology Department of Statistics Iowa State University www.public.iastate.edu/~dcadams/ phone: 515-294-3834 -----Original Message----- From: Carmelo Fruciano [mailto:[email protected]] Sent: Monday, April 4, 2016 3:22 AM To: [email protected] Subject: Re: [MORPHMET] Form Space? Ariadne Schulz <[email protected]> ha scritto: > Hello All, > > I have another rather silly question that I'm hoping either has a very > simple answer or will set off another wave of debate. I'm still on > about my 3D semilandmarks and now I want to plot them in form space in > R. I have my original landmarks and my GPA coordinates and centroid > size from gpagen with a sliding function, and so forth so the new > version of plotAllometry should work, but I really want to plot in > form space. It seems to me I'm just missing something really easy. Is there a > way to do this? Dear Ari, if you are referring to plots of principal components/relative warps in "size-shape space", as defined by Mitteroecker et al 2004 (Journal of Human Evolution), it is basically a PCA on Procrustes coordinates + log centroid size. Reading of the original paper is also useful to understand the idea and its application. I don't know if this approach is implemented "out of the box" in some R package but, given its simplicity, it's easily obtained referring to the original publication by using even basic R function or other general-purpose statistical software. You can see an example of these plots in one of my own papers (Fruciano et al 2012 - Environmental Biology of Fishes) and, really, in many others, where it is used to produce exploratory plots. I hope this helps. Best, Carmelo -- Carmelo Fruciano Postdoctoral Fellow - Queensland University of Technology - Brisbane, Australia Honorary Fellow - University of Catania - Catania, Italy e-mail [email protected] http://www.fruciano.it/research/ -- MORPHMET may be accessed via its webpage at http://www.morphometrics.org --- 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]. -- MORPHMET may be accessed via its webpage at http://www.morphometrics.org --- 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].
