tripal_blast/templates/template-tripal-blast-ui.html.twig

{#
/**
 * @file
 * Default theme implementation of BLAST UI Menupage.
 */
#}

<div id="tripal-blast-info-win" style="display: none">In Bioinformatics, BLAST (Basic Local Alignment Search Tool) is an algorithm
for comparing primary biological sequence information, such as the amino-acid
sequences of different proteins or the nucleotides of DNA sequences. A BLAST
search enables a researcher to compare a query sequence with a library or
database of sequences, and identify library sequences that resemble the query
sequence above a certain threshold. Different types of BLASTs are available
according to the query sequences. For example, following the discovery of a
previously unknown gene in the mouse, a scientist will typically perform a
BLAST search of the human genome to see if humans carry a similar gene;
BLAST will identify sequences in the human genome that resemble the mouse
gene based on similarity of sequence.

<blockquote>Altschul,S.F., Gish,W., Miller,W., Myers,E.W. and Lipman,D.J. 
(1990) Basic local alignment search tool. J. Mol. Biol., 215, 403–410.</blockquote>
</div>

<h2>BLAST Search <span id="tripal-blast-information-link">What is BLAST?</span></span></h2>
<p>
  Search for one or more of your sequences (using BLAST). First pick 
  a query type (nucleotide or protein). You will be able to set search 
  parameters on the next page. Choose the appropriate program based on the 
  Query type and Target database type. 
  Please click on the program name to view the search form.
<p>

<div id="accordion">
  <h3>Nucleotide Query</h3>
  <div class="ui-accordion-content">
    <div class="tripal-blast-content-wrapper">
      <div class="tripal-blast-element-left">
        <h4>Nucleotide Database</h4>
        <small>Search a nucleotide database using a nucleotide query.</small>
      </div>  
      <div class="tripal-blast-element-right">
        {{ context_links['link_blastn'] }}
      </div>
      <div class="tripal-blast-clear-float">&nbsp;</div>
    </div>
    <div class="tripal-blast-content-wrapper">
      <div class="tripal-blast-element-left">
        <h4>Protein Database</h4>
        <small>Search protein database using a translated nucleotide query.</small>
      </div>  
      <div class="tripal-blast-element-right">
        {{ context_links['link_blastx'] }}
      </div>
      <div class="tripal-blast-clear-float">&nbsp;</div>
    </div>
  </div>

  <h3>Protien Query</h3>
  <div class="ui-accordion-content">
    <div class="tripal-blast-content-wrapper">
      <div class="tripal-blast-element-left">
        <h4>Nucleotide Database</h4>
        <small>Search translated nucleotide database using a protein query.</small>
      </div>  
      <div class="tripal-blast-element-right">
        {{ context_links['link_tblastn'] }}
      </div>
      <div class="tripal-blast-clear-float">&nbsp;</div>
    </div>
    <div class="tripal-blast-content-wrapper">
      <div class="tripal-blast-element-left">
        <h4>Protein Database</h4>
        <small>Search protein database using a protein query.</small>
      </div>  
      <div class="tripal-blast-element-right">        
        {{ context_links['link_blastp'] }}
      </div>
      <div class="tripal-blast-clear-float">&nbsp;</div>
    </div>
  </div>
</div>