NAME
Bio::Phylo::Matrices::Datatype::Continuous - Datatype subclass, no serviceable parts inside
DESCRIPTION
The Bio::Phylo::Matrices::Datatype::* classes are used to validated data contained by Bio::Phylo::Matrices::Matrix and Bio::Phylo::Matrices::Datum objects.
METHODS
MUTATORS
- set_lookup()
-
Type : Mutator Title : set_lookup Usage : $obj->set_gap($hashref); Function: Sets the symbol for gaps Returns : Modified object. Args : Argument must be a hash reference that maps allowed single character symbols (including ambiguity symbols) onto the equivalent set of non-ambiguous symbols
ACCESSORS
- get_lookup()
-
Type : Accessor Title : get_lookup Usage : my $lookup = $obj->get_lookup; Function: Returns the object's lookup hash Returns : A hash reference Args : None
TESTS
- is_valid()
-
Type : Test Title : is_valid Usage : if ( $obj->is_valid($datum) ) { # do something } Function: Returns true if $datum only contains valid characters Returns : BOOLEAN Args : A Bio::Phylo::Matrices::Datum object
UTILITY METHODS
- split()
-
Type : Utility method Title : split Usage : $obj->split($string) Function: Splits $string into characters Returns : An array reference of characters Args : A string
- join()
-
Type : Utility method Title : join Usage : $obj->join($arrayref) Function: Joins $arrayref into a string Returns : A string Args : An array reference
SEE ALSO
- Bio::Phylo::Matrices::Datatype
-
This object inherits from Bio::Phylo::Matrices::Datatype, so the methods defined therein are also applicable to Bio::Phylo::Matrices::Datatype::Continuous objects.
- Bio::Phylo::Manual
-
Also see the manual: Bio::Phylo::Manual.
FORUM
CPAN hosts a discussion forum for Bio::Phylo. If you have trouble using this module the discussion forum is a good place to start posting questions (NOT bug reports, see below): http://www.cpanforum.com/dist/Bio-Phylo
BUGS
Please report any bugs or feature requests to bug-bio-phylo@rt.cpan.org
, or through the web interface at http://rt.cpan.org/NoAuth/ReportBug.html?Queue=Bio-Phylo. I will be notified, and then you'll automatically be notified of progress on your bug as I make changes. Be sure to include the following in your request or comment, so that I know what version you're using:
$Id: Continuous.pm 4159 2007-07-11 01:34:55Z rvosa $
AUTHOR
Rutger A. Vos,
- email:
rvosa@sfu.ca
- web page: http://www.sfu.ca/~rvosa/
ACKNOWLEDGEMENTS
The author would like to thank Jason Stajich for many ideas borrowed from BioPerl http://www.bioperl.org, and CIPRES http://www.phylo.org and FAB* http://www.sfu.ca/~fabstar for comments and requests.
COPYRIGHT & LICENSE
Copyright 2005 Rutger A. Vos, All Rights Reserved. This program is free software; you can redistribute it and/or modify it under the same terms as Perl itself.