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4 <!-- InstanceBeginEditable name="doctitle" -->
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5 <TITLE>JalView - Java alignment editor</TITLE>
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23 <td width="700" ><center>
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24 <table width="550" border="0">
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26 <td width="45%"><div align="center"><a href="http://www.compbio.dundee.ac.uk/~andrew/JalviewWebsite/index.html"><img src="../snap22med.gif" width="291" height="116" border="0" align="absmiddle"></a></div></td>
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27 <td width="55%"><div align="center"><font size="+6"><strong><font face="Geneva, Arial, Helvetica, sans-serif">Jalview
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28 </font></strong></font> </div>
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29 <div align="center"><font size="3" face="Geneva, Arial, Helvetica, sans-serif">a
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30 multiple alignment editor</font> </div></td>
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39 <td width="197" valign="top" nowrap> <p><strong>Downloads</strong></p>
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41 <li><a href="index.html">Jalview</a></li>
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43 <strong>Examples</strong> <ul>
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44 <li><a href="examples/applets.html">Applet</a></li>
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45 <li><a href="examples/examples.html">Application</a></li>
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47 <strong>Reference</strong> <ul>
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48 <li> <a href="../jalview.pdf" target="_blank">"The Jalview Java<br>
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49 Alignment Editor,"<br>
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51 <a href="../jalview.pdf"><em>Bioinformatics</em>, 12, 426-7</a>
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53 <strong>Source Code</strong> <ul>
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56 <p><strong>Feedback</strong></p>
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57 <p> <img src="../help.gif" width="151" height="43"> </p>
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59 <a href="http://www.bbsrc.ac.uk/"> <img border="0"src="../bbsrc.jpg"></a>
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61 <td width="499" valign="top"><!-- InstanceBeginEditable name="Contents" -->
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62 <p>Key features of Jalview Version 2:
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64 <li>Remote tools implemented as web services</li>
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65 <li>Remote alignments (<a href="http://www.ebi.ac.uk/clustalw/" target="CLUSTAL">Clustal</a>, <a href="http://www.drive5.com/muscle/" target="MUSCLE">Muscle</a>...)</li>
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66 <li>Remote alignment annotation (<a href="http://www.compbio.dundee.ac.uk/~www-jpred/" target="JPRED">JPred Secondary Structure Prediction</a>)</li>
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68 <li>PNG, HTML, Encapsulated PostScript output</li>
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70 <p>Current development allows the Jalview Application to be distributed
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71 using Java Web Start which is installed with <a href="http://www.java.com/en/download/" target="JAVA">Java.</a>
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72 Each time the application is started via Java Web Start an automatic
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73 update is performed so that you will always be running the latest code.<br>
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75 N.B. if you have a local installation of Java and clicking on the link
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76 below prompts the question "Open using application...", locate
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77 your installation of Java Web Start - its called "javaws". Your web browser will now associate .jnlp
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78 files with Java Web Start<br>
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82 <h2><a href="http://www.compbio.dundee.ac.uk/~andrew/JalviewWebsite/version2/webstart/JalviewX.jnlp">Start
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86 If you are having difficulties installing Java or would prefer not to
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87 use Java Web Start you could try installing Jalview from the following
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91 <h2><a target="NEW" href="Web_Installers/install.htm">Install with InstallAnywhere</a>
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