| Bio::SeqIO::asciitree(3pm) | User Contributed Perl Documentation | Bio::SeqIO::asciitree(3pm) |
Bio::SeqIO::asciitree - asciitree sequence input/output stream
# It is probably best not to use this object directly, but
# rather go through the SeqIO handler system. Go:
$instream = Bio::SeqIO->new(-file => $filename,
-format => 'chadoxml');
$outstream = Bio::SeqIO->new(-file => $filename,
-format => 'asciitree');
while ( my $seq = $instream->next_seq() ) {
$outstream->write_seq();
}
This is a WRITE-ONLY SeqIO module. It writes a Bio::SeqI object containing nested SeqFeature objects in such a way that the SeqFeature containment hierarchy is visible as a tree structure
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 _
Title : show_detail Usage : $obj->show_detail($newval) Function: Example : Returns : value of show_detail (a scalar) Args : on set, new value (a scalar or undef, optional)
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 $seq object (must be seq) to the stream Returns : 1 for success and 0 for error Args : array of 1 to n Bio::SeqI objects
| 2021-08-15 | perl v5.32.1 |