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SplitsTree

Summary

SplitsTree is a popular freeware program for inferring phylogenetic trees, phylogenetic networks, or, more generally, splits graphs, from various types of data such as a sequence alignment, a distance matrix or a set of trees.[1][2] SplitsTree implements published methods such as split decomposition,[3] neighbor-net, consensus networks,[4] super networks methods or methods for computing hybridization or simple recombination networks. It uses the NEXUS file format. The splits graph is defined using a special data block (SPLITS block).

SplitsTree
Developer(s)Daniel Huson and David Bryant
Stable release
4.17.1 / 2021
Preview release
5.3 / 2021
Operating systemWindows, Linux, Mac OS X
TypeBioinformatics
LicenseProprietary
Websiteuni-tuebingen.de/fakultaeten/mathematisch-naturwissenschaftliche-fakultaet/fachbereiche/informatik/lehrstuehle/algorithms-in-bioinformatics/software/splitstree/
An example of a neighbor-net phylogenetic network generated by SplitsTree v4.6.

See also edit

References edit

  1. ^ Dress, A.; K. T. Huber; V. Moulton (2001). "Metric spaces in pure and applied mathematics" (PDF). Documenta Mathematica: 121–139.
  2. ^ Huson, D. H.; D. Bryant (2006). "Application of Phylogenetic Networks in Evolutionary Studies". Mol. Biol. Evol. 23 (2): 254–267. doi:10.1093/molbev/msj030. PMID 16221896.
  3. ^ Bandelt, H. J.; Dress, A. W. (1992). "Split decomposition: a new and useful approach to phylogenetic analysis of distance data". Molecular Phylogenetics and Evolution. 1 (3): 242–252. doi:10.1016/1055-7903(92)90021-8. ISSN 1055-7903. PMID 1342941.
  4. ^ Holland, Barbara; Moulton, Vincent (2003). Benson, Gary; Page, Roderic D. M. (eds.). "Consensus Networks: A Method for Visualising Incompatibilities in Collections of Trees". Algorithms in Bioinformatics. Lecture Notes in Computer Science. 2812. Springer Berlin Heidelberg: 165–176. doi:10.1007/978-3-540-39763-2_13. ISBN 9783540397632.

External links edit

  • SplitsTree homepage (New Website for informations about SplitsTree)
  • Alternative download page for the latest version (4.15) and manual (June 2019), hosted by the Department of Computer Science at the Eberhard Karls University Tübingen
  • Algorithms in Bioinformatics, Daniel Huson's working group developing SplitsTree and other bioinformatics software
  • List of phylogeny software, hosted at the University of Washington
  • The Genealogical World of Phylogenetic Networks provides a wide range of examples for splits graphs, most of which were generated with SplitsTree
  • Who is Who in Phylogenetic Networks lists software, researchers and literature dealing with phylogenetic networks