inst/NEWS.md

In vegandevs/vegan3d: Static and Dynamic 3D and Editable Interactive Plots for the 'vegan' Package

Version 1.3-0

• New function orditkplot with its support functions for interactive ordination plots. The function will open a new Tcl/Tk window where points are fixed at their ordination scores, but their labels can be moved to better position with mouse or edited. The plot can be exported in various graphics formats or saved in the R session for further manipulation or re-created with R commands.

The function was transferred from vegan where it has been since 2008 (CRAN release 1.11-0).

The function adds a conditional dependency on tcltk package.

Version 1.2-0

• Adapted for deprecation of several functions in the rgl package. You should upgrade vegan3d together with rgl. See https://dmurdoch.github.io/rgl/articles/deprecation.html.

Version 1.1-2

• This is a maintenance release to accommodate more stringent tests in CRAN. There should be no user-visible changes.

Version 1.1-1

• ordiplot3d failed if input was a scores matrix instead of being a list-style object.

• rgl.isomap could fail mysteriously with some extra arguments (e.g. with type = "p").

Version 1.1-0

• ordiplot3d can now set the exact aspect ratio in ordination plots. Earlier we had a kluge that gave approximately correct ratio. The package now depends on scatterplot3d version 0.3-40.

Version 1.0-1

Installation

• Documentation uses some macros that require R version 3.2.0 or higher.

Bug Fixes

• ordirgl failed when cex was a variable instead of a number.

• orglcluster did not obey display argument but always showed "sites".

New Features

• orglellipse gained a new option kind = "ehull" to draw ellipsoid hulls or minimum volume ellipsoids that enclose all points of a group. The option is based on ellipsoidhull() function (cluster package).

• ordirgl allows suppressing display of environmental variables in constrained ordination with envfit = NA.

Version 1.0-0

General

• Package was updated to the current rgl (version 0.95) giving a facelift to the plots.

Bug Fixes

• orglspider was not exported.

New Functions

• orditree3d (based on scatterplot3d) and ordirgltree (based on rgl) draw a cluster dendrogram over a 2D ordination or any other plane, for instance a map.

• orglcluster is similar to vegan ordicluster and adds a cluster dendrogam to an ordirgl plot.

• orglellipse is similar to vegan ordiellipse and adds standard deviation, standard error or confidence ellipsoids to an ordirgl plot.

• orglspantree is similar to vegan lines.spantree and adds a minimum spanning tree to an ordirgl plot.

New Features

• Users have improved control of colours of plotted items. The colour can be a vector for points or text items plotted, or for groups of items drawn in the graph (orglellipse, orglsegments, orglspider). If the functions draws lines connecting points, the line colour is a mixture of colours of connected points (orditree3d, ordirgltree, orglcluster, orglspantree, rgl.isomap).

• ordirgl uses now small spheres instead of points with better visual impact.

• ordiplot3d gained a scores function making easier to add 2D items with vegan ordiellipse, ordihull, ordispider, ordisegments etc.

Version 0.65-1

• Maintenance release to adapt to new CRAN rules and changes in vegan.

Version 0.65-0

• First release version was made by splitting 3D graphic functions from vegan. Most of these functions were published in early versions (2005 to 2009) of vegan and are are still based on old rgl (version 0.65) and do not use the full capabilities of the modern package.

vegandevs/vegan3d documentation built on March 24, 2024, 4:06 p.m.