Bio::EnsEMBL::ExternalData::Glovar STS
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Summary
Bio::EnsEMBL::ExternalData::Glovar::STS -
Object representing a Glovar STS
Package variables
No package variables defined.
Included modules
Bio::EnsEMBL::Feature
Inherit
Bio::EnsEMBL::Feature
Synopsis
my $sts = new Bio::EnsEMBL::ExternalData::Glovar::STS(-start => 100,
-end => 300,
-strand => 1,
-slice => $slice
);
$sts->sense_length(21);
$sts->antisense_length(20);
$sts->pass_status('PCR_pass');
Description
This object represents a Glovar STS. In addition to the usual attributes of
a Bio::EnsEMBL::Feature, it holds information like sense and antisense primer
length and test pass status.
Methods
antisense_lengthDescriptionCode
assay_typeDescriptionCode
display_idDescriptionCode
new_fastDescriptionCode
pass_statusDescriptionCode
sense_lengthDescriptionCode
Methods description
antisense_lengthcode    nextTop
  Arg[1]      : (optional) String - length to set
  Example     : $self->antisense_length(25);
  Description : getter/setter for antisense primer length
  Return type : String
  Exceptions  : none
  Caller      : general
assay_typecodeprevnextTop
  Arg[1]      : (optional) String - assay type to set
  Example     : $self->assay_type('ExoSeq');
  Description : getter/setter for assay type
  Return type : String
  Exceptions  : none
  Caller      : general
display_idcodeprevnextTop
  Arg[1]      : (optional) String - ID to set
  Example     : $self->display_id('stsG2345');
  Description : getter/setter for STS display ID
  Return type : String
  Exceptions  : none
  Caller      : general
new_fastcodeprevnextTop
  Arg[1]      : Hashref - initial values for the object
  Example     : 
  Description : creates a new Bio::EnsEMBL::ExternalData::Glovar::STS very
                quickly by blessing a passed hashref into the object. To be
                used by the drawingcode for fast object creation
  Return type : Bio::EnsEMBL::ExternalData::Glovar::STS
  Exceptions  : none
  Caller      : drawingcode
pass_statuscodeprevnextTop
  Arg[1]      : (optional) String - pass status to set
  Example     : $self->pass_status('pass');
  Description : getter/setter for pass status
  Return type : String
  Exceptions  : none
  Caller      : general
sense_lengthcodeprevnextTop
  Arg[1]      : (optional) String - primer length to set
  Example     : $self->sense_length(20);
  Description : getter/setter for sense primer length
  Return type : String
  Exceptions  : none
  Caller      : general
Methods code
antisense_lengthdescriptionprevnextTop
sub antisense_length {
    my $self = shift;
    $self->{'antisense_length'} = shift if (@_);
    return $self->{'antisense_length'};
}
assay_typedescriptionprevnextTop
sub assay_type {
    my $self = shift;
    $self->{'assay_type'} = shift if (@_);
    return $self->{'assay_type'};
}

1;
}
display_iddescriptionprevnextTop
sub display_id {
    my $self = shift;
    $self->{'display_id'} = shift if (@_);
    return $self->{'display_id'};
}
new_fastdescriptionprevnextTop
sub new_fast {
    my $class = shift;
    my $hashref = shift;
    return bless $hashref, $class;
}
pass_statusdescriptionprevnextTop
sub pass_status {
    my $self = shift;
    $self->{'pass_status'} = shift if (@_);
    return $self->{'pass_status'};
}
sense_lengthdescriptionprevnextTop
sub sense_length {
    my $self = shift;
    $self->{'sense_length'} = shift if (@_);
    return $self->{'sense_length'};
}
General documentation
LICENCETop
This code is distributed under an Apache style licence:
Please see /code_licence.html for details
AUTHORTop
Patrick Meidl <pm2@sanger.ac.uk>
CONTACTTop
Post questions to the EnsEMBL development list ensembl-dev@ebi.ac.uk