Posted Tue, Apr, 01,2014
Published today in Evolutionary Bioinformatics is a new original research article by Torsten H. Struck. Read more about this paper below:
Title
TreSpEx—Detection of Misleading Signal in Phylogenetic Reconstructions Based on Tree Information
Abstract
Phylogenies of species or genes are commonplace nowadays in many areas of comparative biological studies. However, for phylogenetic reconstructions one must refer to artificial signals such as paralogy, long-branch attraction, saturation, or conflict between different datasets. These signals might eventually mislead the reconstruction even in phylogenomic studies employing hundreds of genes. Unfortunately, there has been no program allowing the detection of such effects in combination with an implementation into automatic process pipelines. TreSpEx (Tree Space Explorer) now combines different approaches (including statistical tests), which utilize tree-based information like nodal support or patristic distances (PDs) to identify misleading signals. The program enables the parallel analysis of hundreds of trees and/or predefined gene partitions, and being command-line driven, it can be integrated into automatic process pipelines. TreSpEx is implemented in Perl and supported on Linux, Mac OS X, and MS Windows. Source code, binaries, and additional material are freely available at http://www.annelida.de/research/bioinformatics/software.html.
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Interview with Professor Jamie DaviesThe quality of each of the reviews was outstanding, and greatly helped me make the paper so much more readable and valuable. The entire process was so much more supportive and communicative than with other journals I have dealt with. Congratulations on building a fantastic academic publishing organization.
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