Bio::Matrix::IO::scoriUser)Contributed Perl DocumenBio::Matrix::IO::scoring(3)NAMEBio::Matrix::IO::scoring - A parser for PAM/BLOSUM matricies
SYNOPSIS
use Bio::Matrix::IO;
my $parser = Bio::Matrix::IO->new(-format => 'scoring',
-file => 'BLOSUM50');
my $matrix = $parser->next_matrix;
DESCRIPTION
Describe the object here
FEEDBACK
Mailing Lists
User feedback is an integral part of the evolution of this and other
Bioperl modules. Send your comments and suggestions preferably to the
Bioperl mailing list. Your participation is much appreciated.
bioperl-l@bioperl.org - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
Support
Please direct usage questions or support issues to the mailing list:
bioperl-l@bioperl.org
rather than to the module maintainer directly. Many experienced and
reponsive experts will be able look at the problem and quickly address
it. Please include a thorough description of the problem with code and
data examples if at all possible.
Reporting Bugs
Report bugs to the Bioperl bug tracking system to help us keep track of
the bugs and their resolution. Bug reports can be submitted via the
web:
http://bugzilla.open-bio.org/
AUTHOR - Jason Stajich
Email jason-at-bioperl-dot-org
APPENDIX
The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _
new
Title : new
Usage : my $obj = Bio::Matrix::IO::scoring->new();
Function: Builds a new Bio::Matrix::IO::scoring object
Returns : an instance of Bio::Matrix::IO::scoring
Args :
next_matrix
Title : next_matrix
Usage : my $matrux = $parser->next_matrix
Function: parses a scoring matrix (BLOSUM,PAM styles)
Returns : L<Bio::Matrix::Scoring>
Args : none
write_matrix
Title : write_matrix
Usage : $matio->write_matrix($matrix)
Function: Write out a matrix in the BLOSUM/PAM format
Returns : none
Args : L<Bio::Matrix::Scoring>
perl v5.14.1 2011-07-22 Bio::Matrix::IO::scoring(3)