NAME

FAST::Bio::SeqIO::ztr - ztr trace sequence input/output stream

SYNOPSIS

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

DESCRIPTION

This object can transform FAST::Bio::Seq objects to and from ztr trace files.

FEEDBACK

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:

https://redmine.open-bio.org/projects/bioperl/

AUTHORS - Aaron Mackey

Email: amackey@virginia.edu

APPENDIX

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 : FAST::Bio::Seq::Quality object
Args    : NONE

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    : FAST::Bio::Seq object

compression

Title   : compression
Usage   : $stream->compression(3);
Function: determines the level of ZTR compression
Returns : the current (or newly set) value.
Args    : 1, 2 or 3 - any other (defined) value will cause the compression
          to be reset to the default of 2.