This function organizes higher-level information for creating variants from
phylogenetic tree(s) output as
(both from the
ape package) or NEWICK files.
vars_phylo(obj = NULL, fn = NULL)
Object containing phylogenetic tree(s).
This can be (1) a single
One or more string(s), each of which specifies the file name
of a NEWICK file containing a phylogeny.
If one name is provided, that phylogeny will be used for all sequences.
If more than one is provided, there must be a phylogeny for each reference
genome sequence, and phylogenies will be assigned to sequences
in the order provided.
vars_phylo_info object containing information used in
to create haploid variants.
This class is just a wrapper around a list containing phylogenetic tree
information for each reference sequence.