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.
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The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
new
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
next_feature
Title : next_feature
Usage : my $r = $footprint->next_feature
Function: Get the next feature from parser data
Returns : L<Bio::SeqFeature::Generic>
Args : none
_add_feature
Title : _add_feature
Usage : $footprint->_add_feature($feat)
Function: Add feature to array
Returns : none
Args : none
_parse_predictions
Title : _parse_predictions
Usage : my $r = $footprint->_parse_predictions
Function: do the parsing
Returns : none
Args : none
_predictions_parsed
Title : _predictions_parsed
Usage : $footprint->_predictions_parsed(1)
Function: Get/Set for whether predictions parsed
Returns : 1/0
Args : none
_parse
Title : _parse
Usage : $footprint->_parse($name,$seq,$pattern)
Function: do the actual parsing
Returns : L<Bio::SeqFeature::Generic>
Args : none