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Bio::Phylo::Models::Substitution::Dna::JC69(3) User Contributed Perl Documentation Bio::Phylo::Models::Substitution::Dna::JC69(3)

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

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

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.
    

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>.

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>

2017-10-30 perl v5.32.1

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