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Consequently, the evolution of message densities under iterative decoding has to be described through multiple evolution trees, which can be derived from the Tanner graph.
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Therefore, there are 14 evolution trees.
Additional trees were built, using alternate phylogenetic methods (neighbour-joining trees under various models of evolution, minimum evolution trees and maximum parsimony trees) to verify the observed phylogeny.
Multiple alignments of putative amino acid sequences were performed using the PRALINE server with the standard progressive strategy [ 76], and neighbor-joining minimum evolution trees were obtained using PAUP 4.0b10 [ 77].
Minimum evolution trees were generated using the program Mega2 [ 26].
In this way, an evolution tree could be designed.
The alternative methods of phylogenetic tree construction, minimum evolution and maximum likelihood, were tested, but the support for the minimum evolution tree was not sufficient (data not shown).
Users can have multiple tree displays, save tree sessions for future display, display images on tree for groups and taxa.
Based on the alignment we created multiple phylogenomic trees (maximum parsimony, minimum evolution, neighbor joining) including 100 bootstrap replicates.
For non-hybrid diploid species, individual gene trees yield some conflicting topologies; nevertheless, key nodes for the purposes of interpreting character evolution in hybrids are recovered in multiple gene trees and are supported by supernetwork analyses (Kelly et al., 2010).
A Minimum-Evolution tree was reconstructed from this matrix.
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