View Menu (in Tree Explorer)

This menu brings up several viewing options:

Topology only: This displays the tree in the form of relationships among the taxa A taxon is the individual unit whose evolutionary relationship is being investigated. Depending on the study, “taxa” may refer to species, populations, individuals, or sequences within an individual., ignoring the branch A branch is a line connecting either two internal nodes to each other or an external node to an internal node in a phylogenetic tree. The length of a branch denotes the genetic distance (e.g., number of substitutions per unit time) between the two taxa it connects. lengths.

Root on Midpoint: This roots the tree on the midpoint of the longest path between two taxa.

Arrange Taxa: This allows you to arrange the taxaRH_Taxa in the tree based on the order of taxa in the input data file or to produce a tree that looks “balanced.”

Tree/Branch Style: This allows you to select the display of the tree in one of three styles: Traditional, Radiation, or Circle.  For Traditional, there are three additional options: Rectangular, Straight or Curved.

Show/Hide: This allows you to display or hide the following information: taxon label, taxon marker, statistics (e.g., bootstrap values), branch lengths, node A node in a phylogenetic tree represents a taxon, the external or terminal nodes represent the extant taxa and the internal nodes represent the ancestral taxa. ids, divergence times (for timetrees), data coverage Data coverage at a given internal node in a tree is defined as the proportion of sites where there is at least one taxon (sequence) in each descendent lineage that has available sequence data. This value is only available for timetrees and is useful for identifying problematic nodes in the tree where divergence time estimates may be unreliable due to lack of available data (see Filipski et al.). (for timetrees) or scale bar.

Fonts: This allows you to choose features such as font type and size for information, including the taxon label, statistics, and scale bar.

Options: This brings up the Option dialog boxHC_Format_dialog_box_in_Tree_Explorer, which provides control over various aspects of the tree drawing, including individual branches, the taxon names, and the scale bar.