Software v2 release notes
Software updates: v2 of the GSEA java desktop application has been released.
What's new in GSEA Java v2.0
Thanks to feedback from several users over the past year we have made changes to improve the usability of the software. In addition, we have added a gene sets browser to view, query, map and download gene sets from our MSigDB database. The algorithm has not changed. The main new features and enhancements in GSEA java v2.0 include:
- The industry's best i18n support: IntelliJ IDEA's greatly enhanced internationalization support now surpasses any other Java localization tool currently available. We even used the new functionality ourselves to create a new version of IntelliJ IDEA in Japanese (concurrently released by our reseller in Japan). <a href="../../../features/i18n_support.html">Read more »</a>
- Improved JavaScript and Web Development support: important improvements to JavaScript support equip both experienced developers and "newbies" with a full arsenal of features. Even AJAX development becomes quick and simple (especially when developing AJAX libraries). <a href="../../../features/javascript.html">Read more »</a>
- New JSP debugging support: including source-level JSP debugging when remotely connected to IBM WebSphere™ 5.1 or later. <a href="javascript://" onclick="openBrWindow('documentation/howto_02.html','winFullScr','scrollbars=yes,menubar=no,resizable=yes,location=yes,width=640, height=660');return BOPlaceMark();">Read more »</a>
- More support for plug-in developers: New actions for auto-creating new application, module, and project components; new inspections validate the consistency of plug-in descriptors. <a href="../../../features/open_api.html">Read more »</a>
#### List for Heidi ####
Application messages can be viewed in the status bar at the bottom of the interface.
A memory monitor displays how much memory is being used / available. Clicking the icon by its side runs the garbage collector
in an attempt to free up memory.
Added to phenotype chooser parameter is the ability to use the expression profile of a gene in the dataset as a
phenotype (continuous vector) for gsea (refer to the Pegtel paper).
Splash screen displayed at application loadup
make sure preference options are documented
Context sensitive help:
These are special help buttons distributed throughtout the java GUI. On user click they open up a URL at the GSEA doc webs ite.
The mappings between help button names (keys) and the URL (values) are in the file: resources/HelpURLs.txt
Lis these out to see which iones need special care.
Default output folder can be anywhere now. Use the preferences to change the path.
- doc the edb as a machine parsable version of enrichment results
Main New Features
lev
context sensitive help
headless heat map
better fperf with large gene set databases
improved pictures on reports
auto collapse
smart formats
