Version - 1.4 - 2014-10-31
- Added three arguments to geoscalePhylo (erotate,arotate and urotate) that allows for the text in the Epoch, Age and User temporal units to be rotated by the user.
- Issue fixed that stopped geoscalePhylo plotting properly when terminal ranges were added to the tree using either DatePhylo or timePaleoPhy (paleotree package).
- Incompatibility with ape fixed that caused an error when plotting a tree with geoscalePhylo that did not include stratigraphic ranges.
- The option for geoscalePhylo called ranges is removed, instead simply including an correctly formatted ages file will cause the stratigraphic ranges to be included in the plot.
- Changed default for fix.topology in StratPhyloCongruence to TRUE.
- Modified calculation for p-values in StratPhyloCongruence to take the arcsine square root of each metric to make data closer to the assumption of a normal distribution.
- Added Wills-type p-value as column to output from StratPhyloCongruence.
- Updated help files for StratPhyloCongruence to note the p-value output changes.
Version - 1.3 - 2014-08-08
- Option added to geoscalePhylo that allows the tree to be plotted vertically using the new argument direction.
- Fixed DatePhylo bug with equal and ruta methods regarding order in which branch-sharing occurs (see timePaleoPhy function in paleotree for additional