Provided by: libbio-perl-perl_1.7.2-3_all bug


       Bio::SeqIO::gcg - GCG sequence input/output stream


       Do not use this module directly.  Use it via the Bio::SeqIO class.


       This object can transform Bio::Seq objects to and from GCG flat file databases.


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AUTHORS - Ewan Birney & Lincoln Stein

       Email: <>


       Jason Stajich,


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

        Title   : next_seq
        Usage   : $seq = $stream->next_seq()
        Function: returns the next sequence in the stream
        Returns : Bio::Seq object
        Args    :

        Title   : write_seq
        Usage   : $stream->write_seq(@seq)
        Function: writes the formatted $seq object into the stream
        Returns : 1 for success and 0 for error
        Args    : array of Bio::PrimarySeqI object

        Title     : GCG_checksum
        Usage     : $cksum = $gcgio->GCG_checksum($seq);
        Function  : returns a gcg checksum for the sequence specified

                    This method can also be called as a class method.
        Example   :
        Returns   : a GCG checksum string
        Argument  : a Bio::PrimarySeqI implementing object

        Title   : _validate_checksum
        Usage   : n/a - internal method
        Function: if parsed gcg sequence contains a checksum field
                : we compare it to a value computed here on the parsed
                : sequence. A checksum mismatch would indicate some
                : type of parsing failure occurred.
        Returns : 1 for success, 0 for failure
        Args    : string containing parsed seq, value of parsed checksum