...
Computes the probabilities of gene tree topologies within a phylogenetic network. The network should have branch lengths, and probabilities associated with reticular edges. Also it must be specified in the Rich Newick Format.
...
| Code Block | ||
|---|---|---|
| ||
CalGTProb network_ident (gene_tree_ident1 [, gene_tree_ident2...|, gene_tree_ident2...]) [-a taxa map] [result output file] |
network_identntident | The name of the network. | mandatory | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="86d0d8ff76fc3d32-d233a871-4d9a4345-b320a175-f593f22b4f1f4d9c1d7a1a21"><ac:plain-text-body><![CDATA[ | gene_tree_ident1 [, gene_tree_ident2...] | Comma delimited list of gene tree identifiers. | mandatory | ]]></ac:plain-text-body></ac:structured-macro> |
-a taxa map | Gene tree / species tree taxa association. | optional | ||
result output file | Optional file destination for command output. | optional |
...
| Wiki Markup |
|---|
By default, it is assumed that only one individual is sampled per species in gene trees. However, the option {{\[-a}} {{[_taxa map_|Taxa Map Command Parameter]}}{{\]}} allows multiple alleles to be sampled. |
...