CellNOpt specifications

Information


Unique identifier OMICS_06007
Name CellNOpt
Alternative name CellNetOptimizer
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A prior knowledge network (PKN) describing signed and directed interactions between proteins as a graph, biochemical data relating to the changes in the modification state (typically phosphorylation) of proteins following stimulation under various conditions
Input format SIF, MIDAS
Output data The summary of the analysis, hyperlinked to diagnostic graphs, and the trained networks
Output format HTML
Operating system Unix/Linux, Mac OS, Windows
Programming languages MATLAB, Python, R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.20.0
Stability Stable
Requirements GraphViz, RBGL, graph, methods, hash, ggplot, RCurl, Rgraphviz, XML
Maintained Yes

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Publication for CellNetOptimizer

CellNOpt institution(s)
European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Cambridge, UK; Biological Engineering Department, Massachusetts Institute of Technology, Cambridge, MA, USA
CellNOpt funding source(s)
This work was supported by the Institute for Collaborative Biotechnologies (contract no. W911NF-09-D-0001 from the U.S. Army Research Office), EU-7FP-BioPreDyn and the EMBL EIPOD program.

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