/ 
Bio-FastParsers-0.221230
River stage one • 7 direct dependents • 8 total dependents
/ Bio::FastParsers::Blast::Xml::Parameters

NAME

Bio::FastParsers::Blast::Xml::Parameters - NCBI BLAST DTD-derived internal class

VERSION

version 0.221230

SYNOPSIS

# see Bio::FastParsers::Blast::Xml

DESCRIPTION

This class implements the Parameters level of the XML BLAST parser.

METHODS

entrez_query

Returns the value of the element <Parameters_entrez-query>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $entrez_query = $parameters->entrez_query;

This method does not accept any arguments.

expect

Returns the value of the element <Parameters_expect>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $expect = $parameters->expect;

This method does not accept any arguments.

filter

Returns the value of the element <Parameters_filter>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $filter = $parameters->filter;

This method does not accept any arguments.

gap_extend

Returns the value of the element <Parameters_gap-extend>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $gap_extend = $parameters->gap_extend;

This method does not accept any arguments.

gap_open

Returns the value of the element <Parameters_gap-open>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $gap_open = $parameters->gap_open;

This method does not accept any arguments.

include

Returns the value of the element <Parameters_include>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $include = $parameters->include;

This method does not accept any arguments.

matrix

Returns the value of the element <Parameters_matrix>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $matrix = $parameters->matrix;

This method does not accept any arguments.

pattern

Returns the value of the element <Parameters_pattern>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $pattern = $parameters->pattern;

This method does not accept any arguments.

sc_match

Returns the value of the element <Parameters_sc-match>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $sc_match = $parameters->sc_match;

This method does not accept any arguments.

sc_mismatch

Returns the value of the element <Parameters_sc-mismatch>.

# $parameters is a Bio::FastParsers::Blast::Xml::Parameters
my $sc_mismatch = $parameters->sc_mismatch;

This method does not accept any arguments.

ALIASES

evalue

Alias for expect method. For API consistency.

AUTHOR

Denis BAURAIN <denis.baurain@uliege.be>

COPYRIGHT AND LICENSE

This software is copyright (c) 2013 by University of Liege / Unit of Eukaryotic Phylogenomics / Denis BAURAIN.

This is free software; you can redistribute it and/or modify it under the same terms as the Perl 5 programming language system itself.