| Bio::SeqIO::chaosxml(3pm) | User Contributed Perl Documentation | Bio::SeqIO::chaosxml(3pm) |
Bio::SeqIO::chaosxml - chaosxml sequence input/output stream
#In general you will not want to use this module directly;
#use the chaosxml format via SeqIO
$outstream = Bio::SeqIO->new(-file => $filename, -format => 'chaosxml');
while ( my $seq = $instream->next_seq() ) {
$outstream->write_seq($seq);
}
This object can transform Bio::Seq objects to and from chaos files.
CURRENTLY WRITE ONLY
ChaosXML is an XML mapping of the chado relational database; for more information, see http://www.fruitfly.org/chaos-xml
Chaos can have other syntaxes than XML (eg S-Expressions, Indented text)
See Bio::SeqIO::chaos for a full description
!!!!!!!!!!!CHADO AND CHAOS USE INTERBASE COORDINATES!!!!!!!!!!!!!!!!
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
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.
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://github.com/bioperl/bioperl-live/issues
Email cjm@fruitfly.org
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
| 2018-10-27 | perl v5.26.2 |