PrIMETV

PrIMETV visualizes tree reconciliations as tree-within-tree illustrations to represent evolutionary relationships such as gene family evolution and parasite-host co-speciation.

Key Features:

• Automatic Visualization: Generates tree-within-tree illustrations of general reconciliations without manual editing.
• Extended Newick Format Compatibility: Reads reconciled trees in the extended Newick format.
• Customizable Output: Allows adjustment of output attributes such as colors and layout.
• Comprehensive Graphic Formats: Exports illustrations in multiple graphic formats.
• Supporting Tools: Provides helper programs readReconciliation and reconcile to construct reconciled-tree input.

Scientific Applications:

• Gene-family evolution: Visualizes how species-tree structure affects gene-family phylogenies.
• Parasite-host co-speciation: Represents parasite-host co-speciation scenarios by reconciling parasite and host phylogenies within a species tree.
• Exploration of reconciliation hypotheses: Depicts both most-parsimonious and biologically relevant non-parsimonious reconciliations to compare alternative evolutionary scenarios.

Methodology:

PrIMETV reads reconciled trees from the extended Newick format (optionally prepared with readReconciliation and reconcile) and generates tree-within-tree illustrations, supporting visualization of most-parsimonious and non-parsimonious reconciliations.