DEFINITIONS

A group is a set of leaf nodes. This kind of sets is either from saving a query or by hand-marking on a tree by user. Each of groups is uniquely identified by a group color. Nine colors are used. Two are reserved colors.

Reserved Colors: reserved colors are default query result color which is sky blue and color for overlapping nodes which is black.

Terminal Node vs. Leaf Node: If user collapses an interior node, this node becomes a terminal node because no children are displayed for this node, where leaf nodes are always the leaf of a tree.

Property vs. Annotation vs. Trait: These three means in the same in the context of TreeQ-Vista application. They are used interchangeably throughout the tutorial and paper. A property/annotation/trait is a pair of a key and a value. Many values can be associated with the same key. For example: DOMAIN = "Archaea".