Dear Alaettin,
to my knowledge, MorphoJ does NOT perform cluster analysis (have a
look at
http://www.flywings.org.uk/MorphoJ_guide/frameset.htm?comparison/mapPhylo.htm
).
Nexus files are reflective of a phylogenetic hypothesis and are
normally obtained from programs that use methods of phylogenetic
inference.
If one had a specific phylogenetic hypothesis in mind, one could also
create the Nexus file by hand (i.e. in a text editor such as Notepad
in Windows) following the format (of which there are some variants).
A formal description of the format can be found in
Maddison et al. 1997 Systematic Biology 46(4):590-621. (you can freely
access the paper at http://www.phylo.org/tools/nexus_document.pdf ).
Various primers on the format are also available online (for instance
at
http://hydrodictyon.eeb.uconn.edu/eebedia/index.php/Phylogenetics:_NEXUS_Format
).
In this case, you might want to know that trees are encoded in the
Newick format (which is described, for instance, at
http://evolution.genetics.washington.edu/phylip/newicktree.html )
I hope this helps,
Carmelo
Alaaettin Kaya <[email protected]> ha scritto:
Dear
I want to do cluster analysis by morphoJ, but ı can't manage to create
nexux file. How is it create
thanks all
--
Dr. Alaettin KAYA
Dicle University, Science Faculty
Biology Departmant
21280 DİYARBAKIR/TURKEY
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--
Carmelo Fruciano
Honorary Fellow - University of Catania - Catania, Italy
e-mail [email protected]
http://www.fruciano.it/research/
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