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network_ident1 | The name of the first network. | mandatory | ||
network_ident2 | The name of the second network. | mandatory | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="a0a2e37671ab1c1a-ff4edb9d-4f0847be-a495ac2e-606491958e2e3552ca4438fb"><ac:plain-text-body><![CDATA[ | -m [tree|tri|cluster] | Characterization mode. One of | mandatory | ]]></ac:plain-text-body></ac:structured-macro> |
result output file | Optional file destination for command output. | optional |
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| Code Block | ||
|---|---|---|
| ||
#NEXUS BEGIN NETWORKS; Network net1 = ((a,(b,(c)x#1)),((d,x#1),e)); Network net2 = ((((a, (c)x#1), d), (b, x)), e); END; BEGIN PHYLONET; Cmpnets net1 net2 -m cluster; END; |
Command References
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- L. Nakhleh, J. Sun, T. Warnow, R. Linder, B.M.E. Moret, and A. Tholse. Towards the development of computational tools for evaluating phylogenetic network reconstruction methods. In Proc. 8th Pacific Symp. on Biocomputing (PSB03), pages 315--326. World Scientific Pub., 2003.
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- B.M.E. Moret, L. Nakhleh, T. Warnow, C.R. Linder, A. Tholse, A. Padolina, J. Sun, and R. Timme. Phylogenetic networks: modeling, reconstructibility, and accuracy. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 1(1):13--23, 2004.
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- L. Nakhleh and L.S.Wang. Phylogenetic networks, trees, and clusters. In Proceedings of the 2005 International Workshop on Bioinformatics Research and Applications (IWBRA 05), pages 919--926, 2005. LNCS #3515.
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- L. Nakhleh and L.S. Wang. Phylogenetic networks: properties and relationship to trees and clusters. LNCS Transactions on Computational Systems Biology II, pages 82--99, 2005. LNBI #3680.