DESCRIPTIONDraws simple HTML tables to display Bio::PrimerDesigner PCR primer design and e-PCR results for web applications.
info_tablePrints 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 );
PCR_headerReturns a generic header for the PCR primer table. Does not expect any argumments.
PCR_setReturns the top row for the PCR primer table. Expects the primer set number as its only argument.
PCR_rowReturns 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 );
ePCR_rowReturns table rows summarizing e-PCR results. Expects to be passed an Bio::PrimerDesigner::Result e-PCR results object and an optional e-PCR label.
renderRenders 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 );
PCR_mapReturns 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.
AUTHORCopyright (C) 2003-2009 Sheldon McKay <[email protected]>.
LICENSEThis 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.