New version of contMap

I just posted a new version of contMap (described here and in my recent MEE article). contMap uses a color scale to map the observed and reconstructed values of a continuous character onto the branches of a phylogeny.

This update just brings contMap into alignment with densityMap in that it (invisibly) returns an object of class "contMap" so that adjusting the plotting parameters can be accomplished without recomputing all the ancestral states.

As I demonstrated on Travis Ingram's recommendation, this - in addition to speeding up re-plotting if we need to change the parameters of our plot - allows us to easily change the palette of colors used to map our trait on the tree. For instance, we can easily change to grayscale. Here I show how we can flip low to high in our color map.

> require(phytools)
Loading required package: phytools
> packageVersion("phytools")
[1] ‘0.2.61’
> tree<-pbtree(n=30)
> x<-fastBM(tree)
> maps<-contMap(tree,x)

Alright, now let's flip the colors:

> maps$cols[]<-maps$cols[length(maps$cols):1]
> plot(maps)

Pretty cool.

Code is here; new phytools build (0.2-61), here.