Amalgamating Source Trees with Different Taxonomic Levels

Amalgamating source trees with different taxonomic levels.

Supertree methods combine a collection of source trees into a single parent tree or supertree. For almost all such methods, the terminal taxa across the source trees have to be non-nested for the output supertree to make sense. Motivated by Page, the first supertree method for combining rooted source trees where the taxa can be hierarchically nested is called AncestralBuild. In addition to taxa...

Quartet MaxCut: a fast algorithm for amalgamating quartet trees.

Accurate phylogenetic reconstruction methods are inherently computationally heavy and therefore are limited to relatively small numbers of taxa. Supertree construction is the task of amalgamating small trees over partial sets into a big tree over the complete taxa set. The need for fast and accurate supertree methods has become crucial due to the enormous number of new genomic sequences generat...

Amalgamating valued fields

Visualizations for taxonomic and phylogenetic trees

MOTIVATION Despite substantial efforts to develop and populate the back-ends of biological databases, front-ends to these systems often rely on taxonomic expertise. This research applies techniques from human-computer interaction research to the biodiversity domain. RESULTS We developed an interactive node-link tool, TaxonTree, illustrating the value of a carefully designed interaction model,...

Animal Evolution: Trichoplax, Trees, and Taxonomic Turmoil

The genome sequence of Trichoplax adhaerens, the founding member of the enigmatic animal phylum Placozoa, has revealed that a surprising level of genetic complexity underlies its extremely simple body plan, indicating either that placozoans are secondarily simple or that there is an undiscovered morphologically complex life stage.