Colours can be exported with the Nexus and tabular Tree formats. If you use the tabular format then there will be a column in the output table called Colour. For the Nexus format, the colours are stored in the comments block for each branch.
|Click on the "Export colours" checkbox to export the colours in a Nexus file.
A few examples are below.
|View labels tab with a set of labels highlighted on the tree.
|The selection colours displayed in FigTree.
|A cluster analysis with six clusters coloured.
|The tree in FigTree with the six clusters coloured.
|A user defined selection.
|The same user defined selection in FigTree.
The colouring works for anything that is applied to the tree, so you can also export continuous palettes when you have calculations per node (branch).
|PD calculated for each cluster node (branch).
|And the same PD colouring now in FigTree.
Kudos to Luke Fitzpatrick for getting it working.
For more details about Biodiverse, see http://purl.org/biodiverse
For the full list of changes in the 1.99 series (leading to version 2) see https://purl.org/biodiverse/wiki/ReleaseNotes (for all issues addressed or being targeted to fix for version 2, see https://github.com/shawnlaffan/biodiverse/milestone/4 ).
To see what else Biodiverse has been used for, see https://purl.org/biodiverse/wiki/PublicationsList
You can also join the Biodiverse-users mailing list at http://groups.google.com/group/Biodiverse-users