Sheldon McKay > Bio-PrimerDesigner-0.07 > Bio::PrimerDesigner::Table


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Bio::PrimerDesigner::Table -- Draw HTML tables for PCR primer display


Draws simple HTML tables to display Bio::PrimerDesigner PCR primer design and e-PCR results for web applications.



Prints a two-column table for generic, key-value style annotations. Expects to be passed the name of the gene/feature/etc. and a hash of attributes. If there is an 'image' key, the value is assumed to be an image URL, which is printed in a double-wide cell at the bottom of the table.

  my $gene       = 'Abc-1';
  my %gene_info  = (
      Chromosome => I,
      Start      => 100450,
      Stop       => 102893,
      Strand     => '+'

  my $page = Bio::PrimerDesigner::Tables->new;
  $page->info_table( $gene, %gene_info );


Returns a generic header for the PCR primer table. Does not expect any argumments.


Returns the top row for the PCR primer table. Expects the primer set number as its only argument.


Returns table rows with PCR primer info. Should be called once for each primer pair. Expects to be passed a hash containing the Bio::PrimerDesigner::Result object and the primer set number and an (optional) label.

  my $pcr_row =  PCR_row( 
      primers => $result_obj,
      setnum  => $set_number,
      label   => $label


Returns table rows summarizing e-PCR results. Expects to be passed an Bio::PrimerDesigner::Result e-PCR results object and an optional e-PCR label.


Renders the image URL. Expects to be passed a hash of the map start and stop, and other features to be mapped (i.e. gene,forward_primer,reverse_primer, label,start and stop of each feature, and gene strand).

  my $image =  $page->render( 
      start => $startleft,
      stop  => $startright,
      feat  => $features


Returns a 6 column wide table cell with the <IMG ...> info. Will display the image of mapped primers in the browser when passed the image URL.


Copyright (C) 2003-2009 Sheldon McKay <>.


This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; version 3 or any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.


Bio::PrimerDesigner::primer3, Bio::PrimerDesigner::epcr.

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