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30 Oct 2017 19:50:35 UTC
- Distribution: Bio-Phylo
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Bus factor: 1- 56.90% Coverage
- License: perl_5
- Perl: v5.8.0
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24 month- Tools
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NAME
Bio::Phylo::Models::Substitution::Dna::HKY85 - Hasegawa, Kishino, Yano (1985) model
DESCRIPTION
See Bio::Phylo::Models::Substitution::Dna
METHODS
- get_nst
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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
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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
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
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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
Module Install Instructions
To install Bio::Phylo, copy and paste the appropriate command in to your terminal.
cpanm Bio::Phylo
perl -MCPAN -e shell install Bio::Phylo
For more information on module installation, please visit the detailed CPAN module installation guide.