Description
Infers the species tree by GLASS. The gene trees must be specified in the rich newick format. The generated output trees will also be generated in the rich newick format.
Usage
infer_st {gene_tree_ident1 [, gene_tree_ident2...]} [result output file]
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gene_tree_ident1 [, gene_tree_ident2...] |
Comma delimited set of gene tree identifiers. |
mandatory |
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-a taxa map |
Gene tree / species tree taxa association. |
optional |
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result output file |
Optional file destination for command output. |
optional |
Specified gene trees must have branch length. By default, it is assumed that only one individual is sampled per species in gene trees. However, the option -a [ allows multiple alleles to be sampled.
Examples
#NEXUS BEGIN NETWORKS; Network g1 = ((((a,b),c),d),e); Network g2 = ((((a,b),c),d),e); Network g3 = ((((a,b),c),d),e); Network g4 = ((a,b),((c,e),d)); Network g5 = ((a,c),((b,e),d)); Network g6 = ((((a,b),c),d),e); Network g7 = ((a,b),((c,e),d)); END; BEGIN PHYLONET; Infer_ST_DV (g1, g2, g3, g4, g5, g6, g7); END;