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

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

<div id="tripal-blast-information-window" style="display: none">
<p align="justify">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.</p>

<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>

<div id="tripal-blast-navigation">
  <div class="tripal-blast-element-left">
    <h2>BLAST Search</h2>
  </div>
  <div class="tripal-blast-element-right">
    <a href="#" id="tripal-blast-nav-blast">What is BLAST?</a> | 
    <a href="https://tripal-blast-ui.readthedocs.io/en/latest/user_guide/features.html" target="_blank">Help</a>
  </div>
  <div class="tripal-blast-clear-float"></div>
</div>
<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. 
  <br /><br /><em>Please click on the program name to view the search form</em>.
<p>

<div id="tripal-blast-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'] }} Program
      </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'] }} Program
      </div>
      <div class="tripal-blast-clear-float">&nbsp;</div>
    </div>
  </div>

  <h3>Protein 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'] }} Program
      </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'] }} Program
      </div>
      <div class="tripal-blast-clear-float">&nbsp;</div>
    </div>
  </div>
</div>