It has long been possible to colour the tree branches in the spatial tab. However, it was only possible to use a list from the spatial analysis being plotted.
From version 5 the interface has been changed to enable selection of any list from spatial outputs across the project. Where before the system had a simple drop down list, it is now a menu with submenus for each basedata and then each of its spatial outputs.
|The tree colour list selection is now a menu that allows users to choose any list across all spatial outputs in the project
As with most widgets in the GUI, the menu entries are described in the tooltip. That text is duplicated below.
The first (default) option shows the paths connecting the labels in the neighbour sets used for the analysis. When there is one such set all branches are coloured blue. When there are two such sets blue denotes branches only in the first set, red denotes those only in the second set, and black denotes those in both. From these one can see the turnover of branches between the groups (cells) in each neighbour set.
The next set of menu options are list indices in the spatial output that belongs to this tab. The remainder are lists across other spatial outputs in the project, organised by their basedata objects. These are in the same order as in the Outputs tab. Basedatas and outputs with no list indices are not shown.
If a branch is not in the list then it is highlighted using a default colour (usually black). If the selected output has no labels that are also on the tree then no highlighting is done (all branches remain black).
Right clicking on a group (cell) fixes the highlighting in place, stopping changes to the branch colouring as the mouse is hovered over other groups. This allows the tree to be exported with the current colouring (another new option in version 5).
For more details about Biodiverse, see http://shawnlaffan.github.io/biodiverse/
For a list of some of the analyses Biodiverse has been used for, see https://github.com/shawnlaffan/biodiverse/wiki/PublicationsList
You can also join the Biodiverse-users mailing list at https://groups.google.com/group/Biodiverse-users or start a discussion at https://github.com/shawnlaffan/biodiverse/discussions