geWorkbench: an open source platform for integrative genomics.
CONCLUSIONS
geWorkbench (genomics Workbench) is an open source Java desktop application that provides access to an integrated suite of tools for the analysis and visualization of data from a wide range of genomics domains (gene expression, sequence, protein structure and systems biology). More than 70 distinct plug-in modules are currently available implementing both classical analyses (several variants of clustering, classification, homology detection, etc.) as well as state of the art algorithms for the reverse engineering of regulatory networks and for protein structure prediction, among many others. geWorkbench leverages standards-based middleware technologies to provide seamless access to remote data, annotation and computational servers, thus, enabling researchers with limited local resources to benefit from available public infrastructure.


BACKGROUND
The project site (http://www.geworkbench.org) includes links to self-extracting installers for most operating system (OS) platforms as well as instructions for building the application from scratch using the source code [which is freely available from the project's SVN (subversion) repository]. geWorkbench support is available through the end-user and developer forums of the caBIG Molecular Analysis Tools Knowledge Center, https://cabig-kc.nci.nih.gov/Molecular/forums/
Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032, USA. geworkbench@c2b2.columbia.edu
Aris
A
Floratos
Kenneth
K
Smith
Zhou
Z
Ji
John
J
Watkinson
Andrea
A
Califano
D023281:Genomics / Q000379:methods*; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry*; D012984:Software; D014584:User-Computer Interface
D011506:Proteins