InMoDe: Difference between revisions
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== Paper == | |||
If you use InMoDe, please cite | |||
R. Eggeling, I. Grosse, and J. Grau; InMoDe: tools for learning and visualizing intra-motif dependencies of DNA binding sites. ''Bioinformatics'', 2016, btw689. doi: 10.1093/bioinformatics/btw689 | |||
== Download and installation == | == Download and installation == | ||
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Both do not require a recent Java, as they automatically install the required libraries to the local machine. | Both do not require a recent Java, as they automatically install the required libraries to the local machine. | ||
== Webserver == | |||
A server with all tools of InMoDe is available for public use at [http://galaxy.informatik.uni-halle.de]. | |||
The provided web-server puts a certain limit on the complexity of runnable jobs for the learning tools. | |||
For unlimited use, please download InMoDe and install it to your local machine or own Galaxy instance. | |||
Revision as of 09:00, 12 December 2016
by Ralf Eggeling, Ivo Grosse, and Jan Grau.
InMoDe is a collection of seven tools for learning, leveraging, and visualizing intra-motif dependencies within DNA binding sites and similar functional nucleotide sequences.
For a detailed description of the functionality of InMoDe see the user guide.
Paper
If you use InMoDe, please cite
R. Eggeling, I. Grosse, and J. Grau; InMoDe: tools for learning and visualizing intra-motif dependencies of DNA binding sites. Bioinformatics, 2016, btw689. doi: 10.1093/bioinformatics/btw689
Download and installation
InMoDe offers three user interfaces.
- InMoDeGUI.jar -- graphical user interface
- InMoDeCLI.jar -- command line interface
- InMoDeGalaxy.jar -- for integration into own Galaxy instance
that can be started by
java -jar filename.jar
and require an existent Java installation (8u74 or later).
In addition, there are two user-friendly alternatives for installing the GUI variant of InMoDe, namely (i) a DMG for installation under Mac OS X, and (ii) a Windows installer.
Both do not require a recent Java, as they automatically install the required libraries to the local machine.
Webserver
A server with all tools of InMoDe is available for public use at [1]. The provided web-server puts a certain limit on the complexity of runnable jobs for the learning tools. For unlimited use, please download InMoDe and install it to your local machine or own Galaxy instance.
