Bio::Phylo::Models::Substitution::Dna::JC69(3)

NAME
Bio::Phylo::Models::Substitution::Dna::JC69 - Jukes, Cantor (1969)

DESCRIPTION
See Bio::Phylo::Models::Substitution::Dna

METHODS

get_nst
    Getter for number of transition rate parameters.

     Type    : method
     Title   : get_nst
     Usage   : $model->get_nst;
     Function: Getter for number of transition rate parameters.
     Returns : scalar
     Args    : None.

get_rate
    Getter for substitution rate. If bases are given as arguments, returns corresponding rate. If no arguments given, returns rate matrix or overall rate, dependent on model.

     Type    : method
     Title   : get_rate
     Usage   : $model->get_rate('A', 'C');
     Function: Getter for transition rate between nucleotides.
     Returns : scalar or array
     Args    : Optional:
               base1: scalar
               base2: scalar

get_catweights
    Getter for weights on rate categories.

     Type    : method
     Title   : get_catweights
     Usage   : $model->get_catweights;
     Function: Getter for number of rate categories.
     Returns : array
     Args    : None

get_catrates
    Getter for rate categories, implemented by child classes.

     Type    : method
     Title   : get_catrates
     Usage   : $model->get_catrates;
     Function: Getter for rate categories.
     Returns : scalar or array
     Args    : None.

SEE ALSO
There is a mailing list at <https://groups.google.com/forum/#!forum/bio-phylo> for any user or developer questions and discussions.

Bio::Phylo::Manual
    Also see the manual: Bio::Phylo::Manual and <http://rutgervos.blogspot.com>.

CITATION
If you use Bio::Phylo in published research, please cite it:

Rutger A Vos, Jason Caravas, Klaas Hartmann, Mark A Jensen and Chase Miller, 2011. Bio::Phylo - phyloinformatic analysis using Perl. BMC Bioinformatics 12:63. <http://dx.doi.org/10.1186/1471-2105-12-63>