Hello This is a simple question but I couldn't google an answer. In the procrustes function of the vegan package, one uses plot(procrustes_object, kind=2) to obtain a plot of the residual differences. For instance: data(varespec) vare.dist <- vegdist(wisconsin(varespec)) library(MASS) mds.null <- isoMDS(vare.dist, tol=1e-7) mds.alt <- isoMDS(vare.dist, initMDS(vare.dist), maxit=200, tol=1e-7) vare.proc <- procrustes(mds.alt, mds.null) plot(vare.proc, kind=2)
In the resulting plot 3 horizontal lines (1 continuous and 2 dashed) are displayed and I was wondering what they actually represent. (Perhaps mean residual +/- 95% CI ?). I would also like to know whether it is possible to customize the plot by, for instance, removing the lines, changing their appearance, or making them represent something else, such as mean +/- SD. Thank you very much for your attention. Juan Antonio Balbuena -- Dr. Juan A. Balbuena Marine Zoology Unit Cavanilles Institute of Biodiversity and Evolutionary Biology University of Valencia [1]http://www.uv.es/~balbuena P.O. Box 22085 [2]http://www.uv.es/cavanilles/zoomarin/index.htm 46071 Valencia, Spain [3]http://cetus.uv.es/mullpardb/index.html e-mail: [4]j.a.balbu...@uv.es tel. +34 963 543 658 fax +34 963 543 733 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ NOTE! For shipments by EXPRESS COURIER use the following street address: C/ Catedrático José Beltrán 2, 46980 Paterna (Valencia), Spain. ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ References 1. http://www.uv.es/%7Ebalbuena 2. http://www.uv.es/cavanilles/zoomarin/index.htm 3. http://cetus.uv.es/mullpardb/index.html 4. mailto:j.a.balbu...@uv.es ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
