Archaeopteryx (software)

Archaeopteryx
Developer(s)	Christian M. Zmasek
Stable release	0.972+ beta 9M / 2012.08.08
Repository	github.com/cmzmasek/forester ;
Operating system	Windows, Linux, Mac OS X
Type	Bioinformatics, phylogenomics
License	LGPL
Website	https://sites.google.com/site/cmzmasek/home/software/archaeopteryx

Archaeopteryx is an interactive computer software program, written in Java, for viewing, editing, and analyzing phylogenetic trees. This type of program can be used for a variety of analyses of molecular data sets, but is particularly designed for phylogenomics. Besides tree description formats with limited expressiveness (such as Newick/New Hamphshire, Nexus), it also implements the phyloXML^[1] format. Archaeopteryx is the successor to Java program A Tree Viewer (ATV).^[2]

References

^ Han, Mira V.; Zmasek, Christian M. (2009). "phyloXML: XML for evolutionary biology and comparative genomics". BMC Bioinformatics. 10. United Kingdom: BioMed Central: 356. doi:10.1186/1471-2105-10-356. PMC 2774328. PMID 19860910.{{cite journal}}: CS1 maint: unflagged free DOI (link)
^ Zmasek, Christian M.; Eddy, Sean R. (2001). "ATV: display and manipulation of annotated phylogenetic trees". Bioinformatics. 17 (4). United Kingdom: Oxford Journals: 383–384. doi:10.1093/bioinformatics/17.4.383. PMID 11301314.

External links

[1] Han, Mira V.; Zmasek, Christian M. (2009). "phyloXML: XML for evolutionary biology and comparative genomics". BMC Bioinformatics. 10. United Kingdom: BioMed Central: 356. doi:10.1186/1471-2105-10-356. PMC 2774328. PMID 19860910.{{cite journal}}: CS1 maint: unflagged free DOI (link)

[2] Zmasek, Christian M.; Eddy, Sean R. (2001). "ATV: display and manipulation of annotated phylogenetic trees". Bioinformatics. 17 (4). United Kingdom: Oxford Journals: 383–384. doi:10.1093/bioinformatics/17.4.383. PMID 11301314.

[1]

[2]

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