PAUP

PAUP
Phylogenetic Analysis Using Parsimony
Pauph.gif
Original author(s) David L Swofford
Written in C
Operating system Macintosh, Windows, Unix-like
Platform Cross-platform
Type science
Website PAUP* 4.0

PAUP (Phylogenetic Analysis Using Parsimony) is a computational phylogenetics program for inferring evolutionary trees (phylogenies), written by David L. Swofford. Originally, as the name implies, PAUP only implemented parsimony, but from version 4.0 (when the program became known as PAUP*) it also supports distance matrix, and likelihood methods. Version 3.0 ran on Macintosh computers and supported a rich, user-friendly graphical interface. Together with the program MacClade[1], with which it shares the NEXUS data format[2], PAUP was the phylogenetic software of choice for many phylogenetists [3]. Version 4.0 added support for Windows (graphical shell and command line) and Unix (command line only) platforms. However, the graphical user interface for the Macintosh version requires Classic, which is no longer supported by Mac OS X 10.5 and later. There is a command line version of PAUP* for Intel-based Macs.

References

  1. ^ D R Maddison & W. P. Maddision. MacClade 4: Analysis of Phylogeny and Character Evolution. ISBN 0-87893-470-7. http://www.sinauer.com/detail.php?id=4707. 
  2. ^ Maddison, D R, D L Swofford & W P Maddison (1997). "NEXUS: an extensible file format for systematic information.". Systematic biology 46 (4): 590–621. doi:10.1093/sysbio/46.4.590. ISSN 1063-5157. PMID 11975335. 
  3. ^ Barry G. Hall (2001). Phylogenetic trees made easy. Sinauer Associates. ISBN 0-87893-311-5. 

External links


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