Provided by: libbio-perl-perl_1.6.923-1_all
Bio::CodonUsage::IO - for reading and writing codon usage tables to file
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);
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.
Bio::Tools::CodonTable, Bio::WebAgent, Bio::CodonUsage::Table, Bio::CodonUsage::IO
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Richard Adams, Richard.Adams@ed.ac.uk
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