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CLC Phylogeny Module is an upgrade to the existing phylogeny tools. The plugin is available in CLC Main Workbench 6.9 beta and CLC Genomics Workbench 6.5 beta and the new tools can also be run on CLC Genomics Server.

The new plugin includes a greatly enhanced viewer for creation and visualization of phylogenetic trees and associated metadata – at high quality, ready for publication.

Two new tools are also included: The k-mer based reconstruction tool for whole genome phylogenetic reconstruction, and the model testing tool for statistic evaluation of different substitution models before maximum likelihood tree construction.