FAQ

How can I cite GenPlay?

If you like GenPlay and use it for your research, please help us by citing our publication in Bioinformatics:

Bioinformatics. 2011 May 19
GenPlay, a multi-purpose genome analyzer and browser.
Lajugie J, Bouhassira E.
Department of Medicine, Albert Einstein College of Medicine, Bronx, New York 10461, USA.

PMID: 21596789

You can also link to GenPlay.net from your website to increase our visibility.

Thank you for your support!

How can I make sure I am using the last version of GenPlay ?

To be sure that you are not actually using an old version of GenPlay you need to delete the Java temporary files from the Java control panel. On Windows, the Java control panel is accessible from the Windows Control Panel > Java icon.

Where can I find the executable of GenPlay?

GenPlay can be launched from the Web Start page of this website.

The jar files of the current and past versions of GenPlay are available in the Older Versions section of this website.

Do I need a license to use GenPlay?

GenPlay is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

Where can I download the source code of GenPlay?

The source code of GenPlay is available from the SVN repository at https://genplay.einstein.yu.edu/svn/GenPlay You can check out the latest source code with a SVN client with the following command:

svn co https://genplay.einstein.yu.edu/svn/GenPlay

During zooming, the item I want to zoom in on keep sliding off the edge of the display. How should I use the zoom functionality to avoid this problem?

During the conception of the software we decided to handle this problem as follow:

• A double click on a feature centers the screen on the selected feature.
• A mouse wheel up or down zoom in or out on the feature that is at the center of the screen. An unintended click on the mouse wheel starts the scroll mode which can be undesirable.

When does GenPlay use multiple CPUs, and is it possible to add more threaded operations?

GenPlay uses more multiple CPUs for the operations only if the computer has more than two cores. When a threaded operation starts, the program checks how many cores are available, and dispatch the threads on each core but one which is kept for the operating system and the display of the GUI. Obviously, if the computer has only one core the operations are started on the same core has the GUI.

Does the software use the GPU, and is it possible to do so?

The software uses the Java 2D technology for the display of the GUI which takes advantage of the GPU. A set of command line flags can be used with this technology, some of which can improve the performance and push the software to fully benefit from hardware acceleration. Here is the java webpage describing the different flags that can be set: http://download.oracle.com/javase/6/docs/technotes/guides/2d/flags.html