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In addition to the NETWORKS block, the TREES block may also be used to define rich newick strings. However, rich newick strings defined in a TREES block may not contain hybridization nodes. Support of for the TREES block as an alternate declaration to the NETWORKS block is for increased comparability with increased compatibility with NEXUS processing tools besides PhyloNet that historically consume or produce TREES blocks within NEXUS files.
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All trees recorded in the TREES section will be of the form:
| Code Block | ||
|---|---|---|
| ||
N_Command_M = ...;
|
Where N is the number of the command (that is, the nth command) as it appears in the original NEXUS script, Command is the command identifier of the command that generated the tree, and M denotes the mth tree generated by the nth command.
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