I recommend using densitree
: https://www.cs.auckland.ac.nz/~remco/DensiTree/
And rwty
: https://github.com/danlwarren/RWTY
Densitree plots the superimposed set of trees in a heatmap-like format:
And rwty
, a very powerful R
package that allows visualisation of treespace in an NMDS format (among other methods):