The vegan3d from dmurdoch

vegan3d's Introduction

What is vegan3d?

vegan3d is an R package of 3D plotting routines split apart from vegan. It can be used for dynamic plots based on rgl package, and for static 3D plots based on scatterplot3d package.

The package contains the following functions:

ordirgl with its support functions orglpoints, orgltext, orglsegments, orglellipse, orglspider, orglcluster and orglspantree. These require rgl package and provide dynamic ordination graphics. See a simple example. In general, the orglXXXX functions are similar as 2D ordiXXXX functions in vegan.
rgl based support functions rgl.isomap to display isomap results, and rgl.renyiaccum to display renyiaccum results.
ordiplot3d for static 3D ordination diagrams. This requires scatterplot3d package.
orditree3d and ordirgltree functions to display a coloured dendrogram tree over a 2D plane. The first is a static function based on scatterplot3d and the latter a dynamic spinnable plot based on rgl. The method was initially designed for showing dendrograms over ordination plane like e.g., BCI plots over CA, but it can use other planes, like the original sampling grid, both coloured and labelled by the dominant tree species. Here also a vegetation clustering in the Palaearctic.

Special plotting functions based on lattice and tcltk packages are still in vegan. ggplot2-based functions are in ggvegan package.