we've addressed many bugs, and also made some important changes in
the way the Jalview desktop is installed and launched.</p>
<ul>
- <li><em>The Jalview Launcher and Update System</em><br />
+ <li><strong>The Jalview Launcher and Update System</strong>.
Jalview's new installation model means you'll only need to
download and install Jalview once. After installation, Jalview
will automatically keep itself up to date. The launcher also sets
href="https://en.wikipedia.org/wiki/Three_Rings_Design">Three
Rings Design</a> for Jalview's new over the air update system: <a
href="https://github.com/threerings/getdown">Getdown</a>.</li>
- <li><em>VCF Support</em>. Proteins and genomic contigs with
+ <li><strong>VCF Support</strong>. Proteins and genomic contigs with
chromosomal location annotation (such as protein coding genes
retrieved from Ensembl) can be annotated with variants <a
href="features/importvcf.html">imported from a local VCF file</a>.</li>
- <li><em>Feature filters and attribute colourschemes</em>. A new
+ <li><strong>Feature filters and attribute colourschemes</strong>. A new
<a href="features/featureschemes.html">Feature Display
Settings</a> dialog allows filters and feature attribute based
colourschemes to be constructed, and a new <em>filters</em> column
added to the <a href="features/featuresettings.html">Feature
Settings</a> dialog. Jalview's sequence feature datamodel has also
been further optimised, and is now maintained as a separate
- library <em><a
- href="https://github.com/bartongroup/IntervalStoreJ">IntervalStoreJ</a></em></li>
- <li><em>Alternative tables for CDS translation</em>. The <a
- href="menus/alwcalculate.html">Translate as CDNA</a> option now
+ library <em>IntervalStoreJ</em> (available at https://github.com/bartongroup/IntervalStoreJ)</li>
+ <li><strong>Alternative tables for CDS translation</strong>. The <a
+ href="menus/alwcalculate.html">Translate as cDNA</a> option now
offers alternative amino acid coding schemes.</li>
- <li><em>PCA plots stored in Jalview Projects</em><br />The <a
+ <li><strong>PCA plots stored in Jalview Projects</strong>. The <a
href="calculations/pca.html">PCA viewer</a> user interface has
also been improved.</li>
- <li><em>Backup files</em><br />Jalview will automatically
+ <li><strong>Backup files</strong>. Jalview will automatically
create backups when overwriting existing files, and - unlike with
earlier versions, should Jalview crash during a save, the original
file will be unaffected. The <a
Jalview. Whilst Jalview 2.11 has been in development, we have also
been working with Prof. Bob Hanson (Jmol and JSmol) to enable
Jalview to run as both a Java application and a JavaScript app in a
- web page. To find out more, see the <a
- href="http://www.jalview.org/jalview-js/">JalviewJS web page</a>.
+ web page. To find out more, open <em>http://www.jalview.org/jalview-js/</em>
+ in Chrome or Firefox.
</p>
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