Bio::Polloc::Typing::bandingPattern - banding-pattern-based methods for typing assessment
Category 1 of genotyping methods in:
Li, W., Raoult, D., & Fournier, P.-E. (2009). Bacterial strain typing in the genomic era. FEMS Microbiology Reviews, 33(5), 892-916.
Email lmrodriguezr at gmail dot com
Methods provided by the package
Generic initialization method
See Bio::Polloc::TypingI->scan.
fragments must be implemented by the Bio::Polloc::Typing::bandingPattern::* object.
Bio::Polloc::Typing::bandingPattern::*
See Bio::Polloc::TypingI->typing_value.
Returns the size of the loci between the minimum (min_size) and the maximum (max_size) size.
A reference to an array of integers.
Generates the expected gel. See Bio::Polloc::TypingI->graph.
Generates fragments.
The group of loci to be used as base to design the protocol.
A Bio::Polloc::LociGrop, where each locus is a fragment.
A Bio::Polloc::Polloc::NotImplementedException unless implemented by the specific Bio::Polloc::Typing::bandingPattern::* object.
Gets/sets the maximum locus size. No limit (inf) by default.
inf
Gets/sets the minimum locus size. 1 by default.
Methods intended to be used only within the scope of Bio::Polloc::*
To install Bio::Polloc, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::Polloc
CPAN shell
perl -MCPAN -e shell install Bio::Polloc
For more information on module installation, please visit the detailed CPAN module installation guide.