NBrowse
From GMOD
Contents |
Description
N-Browse is a graphical network browser for the visualization and navigation of heterogeneous molecular interaction data. N-Browse runs as a Java applet in a web browser, providing highly dynamic and interactive on-demand access to network data available from a remote server. The N-Browse interface is easy to use and accommodates multiple types of functional linkages with associated information, allowing the exploration of many layers of functional information simultaneously. Although created for applications in biology, N-Browse uses a generic database schema that can be adapted to network representations in any knowledge domain. The N-Browse client-server package is freely available for distribution, providing a convenient way for data producers and providers to distribute and offer interactive visualization of network-based data.
Internet Resources
The main N-Browse website, currently providing access to heterogenous functional data in E. coli, C. elegans, D. melanogaster, and H. sapiens (see the website for details on available datasets).
WormBase currently uses N-Browse as a graphical interface to server molecular interaction data curated there. Links to the N-Browse GUI at WormBase are available on the Gene Summary pages.
Documentation
Downloads
Source Code Download (tar.gz file)
Download the source from the SourceForge download page.
CVS
You can also browse the N-Browse CVS.
Installation
Installing and configuring the N-Browse client-server package
1. Download and install the required software (Tomcat, Perl,and MySQL).
2. Download the N-Browse installation package from the SourceForge download page.
3. Configure the install_conf file in the nbrowse_server_client/ directory of N-Browse installation package. Note: This configuration file MUST be modified before installing the N-Browse package. Check README file for more details.
4. Run the install.pl script located in the nbrowse_server_client/ directory:
$ perl install.pl
Installing and populating the N-Browse generic database
The Perl dataloader scripts and README file are located in the nbrowse_dataloader/ directory of the N-Browse installation package.
5. Configure the dataloader_conf file in the nbrowse_dataloader/ directory.
6. Run dataloader perl scripts in the nbrowse_dataloader/ directory. Please see README for the detail information about file formats and HOWTO.
Contacts
Please send questions to the N-Browse_admin.
