- <li><em>VCF Support</em>. Proteins and genomic contigs with
- chromosomal location annotation (such as protein coding genes
- retrieved from Ensembl) can be annotated with variants imported
- from a local VCF file.</li>
- <li><em>The Jalview Launcher and Update System</em><br />
- 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
- Jalview's memory automatically, so you'll never again have to
- manually configure Java's memory settings.<br />We are grateful to
- Install4J who provided us with a free license for their
- installation system, and Jalview's over the air update system is
- via Getdown.</li>
+ <li><strong>Virtual Features</strong><br />In previous
+ versions of Jalview, specific nucleotide sequence features such as
+ genomic variants and exons were transferred to protein products on
+ import. Jalview 2.11.1 instead provides 'virtual features' that
+ can be enabled and overlaid on linked CDS/Protein views via their
+ <a href="features/splitView.html#virtualfeats">Sequence
+ Features dialog</a>. This allows more analyses of nucleotide and
+ peptide sequence features on alignments in a more flexible and
+ memory efficient way than in earlier versions.</li>
+ <li><strong>Improved VCF data import</strong><br /> <a
+ href="features/importvcf.html#attribs">Standard attributes for
+ filtering variants</a> (e.g. position, QUAL field etc) are now
+ extracted from VCF files. This new feature was suggested by a user
+ at the Jalview booth during ISMB 2019.</li>
+ <li><strong>Extended feature attributes are exported
+ in GFF3</strong><br />Complex attributes from VCF files can be exported
+ and imported via GFF3</li>
+ <li><strong>Updated Jalview Installer and Launcher</strong><br />Jalview's
+ installation packages are now built with Install4j 8, which brings
+ better support for Linux and improved control of file
+ associations. New <a href="memory.html#jvm">parameters on the
+ Jalview launcher</a> allow an upper memory limit to be specified <em>via</em>
+ a Jalview launch file, to prevent it from hogging your system.</li>