Dear Emma & ALL, Indeed, when reading my data with readland.nts I get the data in the format required by the geomorph analytical routines. The problem is that I was calling by mistake a routine from Ian Dryden's shapes package (procGPA) to generate the Procrustes-aligned coordinates, instead of the gpagen routine. Fixed this and now everything works fine.
I take this opportunity to ask another question, this time relating to the plots generated by geomorph. Is there a way to customize them, including for example axis labels in the PCA plots? In fact, the "Quick Guide" shows these plots with labels, but I could not figure out how to include them in my plots. Calling the R par function (as one should have done when using the usual "plot" command) did not work. Again, thanks for your help. Best regards,. 2015-04-12 1:39 GMT-03:00 Emma Sherratt <emma.sherr...@gmail.com>: > Mauro, > > If you read in your NTS data file using readland.nts, it will > automatically be in the 3D array format required by plotTangentSpace (after > you use gpagen to do a Procrustes Superimposition). > > If you have your data as a 2D matrix, you simply use arrayspecs to make it > a 3D array. > > Emma > > On Sunday, April 12, 2015, Mauro Cavalcanti <mauro...@gmail.com> wrote: > >> Dear ALL, >> >> I have a number of questions about the geomorph R package, that I will >> post here in separate messages. >> >> First one concerns Principal Components Analysis, using the >> plotTangentSpace routine. It requires a 3D matrix as argument, however my >> data (on fishes) are 2D and I could not figure out how to convert my data >> to the required format; the explanation of the arrayspecs routine in the >> "Quick Guide to Geomorph" was not clear for me (and it lacks a workin >> exemple). >> >> My data are read from a NTSYSpc file containing 2D coordinates for 10 >> landmarks for a number of fish specimens, using the readland.nts routine. I >> have been able to perform a PCA on these data using the shapepca routine in >> Ian Dryden's shapes R package, but would like to perfom the entire analysis >> using geomorph. >> >> Thanks in advance for any hints! >> >> Best regards, >> >> -- >> Dr. Mauro J. Cavalcanti >> E-mail: mauro...@gmail.com >> Web: maurobio <http://sites.google.com/site/maurobio> >> >> -- >> MORPHMET may be accessed via its webpage at http://www.morphometrics.org >> >> To unsubscribe from this group and stop receiving emails from it, send an >> email to morphmet+unsubscr...@morphometrics.org. >> > > > -- > > ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > > Emma Sherratt, PhD. > > Lecturer in Zoology, > Zoology Division, School of Environmental and Rural Science, > Room L120 Bldg C02, > University of New England, > Armidale, NSW, Australia, 2351 > Tel: +61 2 6773 5041 > email: emma.sherr...@une.edu.au > Twitter: @DrEmSherratt > > Caecilians are legless amphibians... > > * __ > (\ .-. .-. /_") > \\_//^\\_//^\\_// > `"` `"` `"`* > > learn more about them here: www.emmasherratt.com/caecilians > > > > > -- Dr. Mauro J. Cavalcanti E-mail: mauro...@gmail.com Web: http://sites.google.com/site/maurobio -- MORPHMET may be accessed via its webpage at http://www.morphometrics.org To unsubscribe from this group and stop receiving emails from it, send an email to morphmet+unsubscr...@morphometrics.org.