Bio::SeqIO::Raw(3pm)

Bio::SeqIO::Raw - Raw sequence input/output stream It is probably best not to use this object directly, but rather go through the SeqIO handler system. Go:

    $stream = Bio::SeqIO->new(-file => $filename, -format => 'Raw');

    while $seq ( <$stream> ) {
        # $seq is a Bio::Seq object
    }

This object can transform Bio::Seq objects to and from raw textfiles. "Raw" is defined to mean 1 or more sequences separated by a newline. Raw sequences are just lines of data with no formatting or special fields. The write_seq() method has not been tested yet, should be simple enough.
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Email [email protected] Describe contact details here The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
next_seq

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

write_seq

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

_filehandle

 Title   : _filehandle
 Usage   : $obj->_filehandle($newval)
 Function: 
 Example : 
 Returns : value of _filehandle
 Args    : newvalue (optional)