Langue: en

Version: 2010-05-19 (ubuntu - 24/10/10)

Section: 3 (Bibliothèques de fonctions)


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");


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,


The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _


  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


  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


  Title  : write_data
  Usage  : $io->write_data($cut);
  Purpose: To  write a CUT to file
  Returns: void
  Args   : a Bio::CodonUsage::Table object reference