</head>
<body>
<p>
- <strong>What's new ?</strong>
+ <strong>What's new in Jalview 2.10.3 ?</strong>
</p>
<p>
- Jalview 2.10 is the next major release in the Jalview 2 series. Full
- details are in the <a href="releases.html#Jalview.2.10.0">Jalview
- 2.10 Release Notes</a>, but the highlights are below.
+ Version 2.10.3 was released in November 2017. The full list of
+ bug fixes and new features can be found in the <a
+ href="releases.html#Jalview.2.10.3"> 2.10.3 Release Notes</a>, but
+ the highlights are below.
</p>
+ <ul>
+ <li>Faster import and more responsive UI when working with wide alignments and handling hundreds and thousands of sequence features</li>
+ <li>
+ <li>Improved usability with <a href="features/pdbsequencefetcher.html">PDB</a> and
+ <a href="features/uniprotsequencefetcher.html">UniProt</a> Free Text Search
+ dialog, and new tab for retrieval of sequences for lists of IDs.</li>
+ </ul>
<p>
- <strong>Highlights in Jalview 2.10</strong>
+ <strong><a name="experimental">Experimental Features</a></strong>
+ </p>
+ <p>
+ This release of Jalview introduces an <em>Experimental Features</em>
+ option in the Jalview Desktop's <em>Tools</em> menu that allows you
+ to try out features that are still in development. To access the
+ experimental features below - first enable the <strong>Tools→Enable
+ Experimental Features</strong> option, and then restart Jalview.
+ </p>
<ul>
- <li><strong>Ensembl sequence fetcher.</strong> Annotated Genes,
- transcripts and proteins can be retrieved via Jalview's new <a
- href="features/ensemblsequencefetcher.html">Ensembl REST
- client</a>. Support for import of Ensembl data also allows:
- <ul>
- <li><strong>Sequence variant data.</strong> Jalview
- propagates variant annotation imported via Ensembl onto
- protein products, complete with associated metadata such as
- clinical significance.</li>
- <li><strong>Aligned locus view.</strong> Transcripts
- retrieved for a gene identifier via the Ensembl or
- EnsemblGenomes sequence databases are automatically aligned to
- their reference genome.</li>
- </ul></li>
- <li><strong>Working with structures.</strong>
- <ul>
- <li><strong>More accurate structure mappings.</strong>
- Jalview now utilises the PDBe's SIFTS database (at EMBL-EBI)
- to <a href="features/siftsmapping.html">match structures
- to UniProt sequences</a>, even for structures containing
- multiple copies of a sequence.</li>
- <li><strong>Import structures as mmCIF</strong>. Jalview
- now downloads data from the EMBL-EBI's PDBe site as mmCIF.
- mmCIF files allow Jalview to handle very large structures,
- such as the HIV virus capsid assembly.</li>
- </ul></li>
- <li><strong>UniProt Free Text Search</strong>. The new search
- dialog for UniProt allows you to browse and retrieve sequences
- from UniProt with free-text search and more structured queries</li>
- <li><strong>Reference sequence based alignment
- visualisation.</strong>. When a reference sequence is defined for the
- alignment, the alignment column ruler is now numbered according to
- the reference sequence. The reference sequence for alignment views
- can also be saved and restored from Jalview projects.</li>
- <li></li>
+ <li><em>Annotation transfer between Chimera and Jalview</em><br />Two
+ <a href="features/chimera.html#experimental">new entries in
+ the Chimera viewer's Chimera menu</a> allow positional annotation to
+ be exchanged between Chimera and Jalview.</li>
</ul>
</body>
git://source.jalview.org / jalview.git / blobdiff