| Bio::Tools::FootPrinter(3pm) | User Contributed Perl Documentation | Bio::Tools::FootPrinter(3pm) |
Bio::Tools::FootPrinter - write sequence features in FootPrinter format
use Bio::Tools::FootPrinter;
my $tool = Bio::Tools::FootPrinter->new(-file=>"footprinter.out");
while (my $result = $tool->next_feature){
foreach my $feat($result->sub_SeqFeature){
print $result->seq_id."\t".$feat->start."\t".$feat->end."\t".$feat->seq->seq."\n";
}
}
This module writes sequence features in FootPrinter format. See <http://bio.cs.washington.edu/software.html> for more details.
User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the Bioperl mailing list. Your participation is much appreciated.
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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 of the bugs and their resolution. Bug reports can be submitted via the web:
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Email shawnh@fugu-sg.org
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : new Usage : my $obj = Bio::Tools::FootPrinter->new(); Function: Builds a new Bio::Tools::FootPrinter object Returns : Bio::Tools::FootPrinter Args : -fh/-file => $val, # for initing input, see Bio::Root::IO
Title : next_feature Usage : my $r = $footprint->next_feature Function: Get the next feature from parser data Returns : L<Bio::SeqFeature::Generic> Args : none
Title : _add_feature Usage : $footprint->_add_feature($feat) Function: Add feature to array Returns : none Args : none
Title : _parse_predictions Usage : my $r = $footprint->_parse_predictions Function: do the parsing Returns : none Args : none
Title : _predictions_parsed Usage : $footprint->_predictions_parsed(1) Function: Get/Set for whether predictions parsed Returns : 1/0 Args : none
Title : _parse Usage : $footprint->_parse($name,$seq,$pattern) Function: do the actual parsing Returns : L<Bio::SeqFeature::Generic> Args : none
| 2018-10-27 | perl v5.26.2 |