Bio::CodonUsage::IO(3)User Contributed Perl DocumentatioBio::CodonUsage::IO(3)NAMEBio::CodonUsage::IO - for reading and writing codon usage tables to
file
SYNOPSIS
use Bio::CodonUsage::IO;
## read in a codon usage file
my $io = Bio::CodonUsage::IO->new(-file => "in");
my $cut = $io->next_data();
## write it out again
my $out = Bio::CodonUsage::IO->new(-file => ">out");
$out->write_data($cut);
DESCRIPTION
This class provides standard IO methods for reading and writing text
files of codon usage tables. These tables can initially be retrieved
using Bio::DB::CUTG. At present only this format is supported for
read/write.
Reading a CUTG will return a Bio::CodonUsage::Table object.
SEE ALSO
Bio::Tools::CodonTable, Bio::WebAgent, Bio::CodonUsage::Table,
Bio::CodonUsage::IOFEEDBACK
Mailing Lists
User feedback is an integral part of the evolution of this and other
Bioperl modules. Send your comments and suggestions preferably to one
of the Bioperl mailing lists. 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
the bugs and their resolution. Bug reports can be submitted via the
web:
http://bugzilla.open-bio.org/
AUTHORS
Richard Adams, Richard.Adams@ed.ac.uk
APPENDIX
The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _
new
Title : new
Usage : my $io = Bio::CodonUsage::IO->new(-file => "CUTfile");
Purpose: To read/write a Bio:CodonUsage::Table object
Returns: A Bio:CodonUsage::IO object
Args : a file or file handle
next_data
Title : next_data
Usage : my $cut = $io->next_data();
Purpose: To obtain a Bio:CodonUsage::Table object
Returns: A Bio:CodonUsage::Table object
Args : none
write_data
Title : write_data
Usage : $io->write_data($cut);
Purpose: To write a CUT to file
Returns: void
Args : a Bio::CodonUsage::Table object reference
perl v5.14.1 2011-07-22 Bio::CodonUsage::IO(3)
