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Information
Unique identifier  OMICS_16859 

Name  RBGL 
Software type  Package/Module 
Interface  Command line interface 
Restrictions to use  None 
Operating system  Unix/Linux, Mac OS, Windows 
License  Artistic License version 2.0 
Computer skills  Advanced 
Version  1.56.0 
Stability  Stable 
Requirements 
methods, BiocGenerics, RUnit, graph, Rgraphviz, XML

Maintained  Yes 
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Documentation
Maintainer
 person_outline Vince Carey
RBGL citations
(8)Maize network analysis revealed gene modules involved in development, nutrients utilization, metabolism, and stress response
[…] The R package of RBGL v 1.44.0 (http://bioconductor.org/packages/RBGL/) is used to calculate the clustering coefficient of the maize GGM network. The network was clustered via the MCL clustering algorithm, using these […]
TopoICSim: a new semantic similarity measure based on gene ontology
[…] used to weigh the GO terms were calculated using the GOSim package (version 1.8.0) []. For each disjunctive the shortest path between the two GO terms was calculated by the Dijkstra algorithm in the RBGL package (version 1.46.0) [] according to (). Also the longest path between the disjunctive and root was calculated by the topology sorting algorithm [] according to (). […]
Ribosome quality control is a central protection mechanism for yeast exposed to deoxynivalenol and trichothecin
[…] ed if both interaction partners were within the set of remaining seeds. The corresponding networks were then visualized using Cytoscape [] and topological properties were calculated using the igraph, RBGL, and QuACN packages in R [–]. The informationtheoretic distance measure was calculated by the infoTheoreticGCM method (parameter: coeff=”exp”) as provided by the QuACN package []. For analyzing […]
CyREST: Turbocharging Cytoscape Access for External Tools via a RESTful API
[…] the Bioconductor group to produce the RCy3 harmonization library for R , which leverages cyREST to realize native R network visualization, analysis, and publishing functions. Its igraph, graph , and RBGL packages are useful components for network data analysis workflows. […]
Visualizing collaborative electronic health record usage for hospitalized patients with heart failure
[…] on a more global level. Clique membership and size within the provider collaboration network were identified using the kCliques algorithm, which is part of the Boost Graph Library interface package (RBGL) for the R statistical computing environment. Figure 4:: […]
Graphical Modeling of Gene Expression in Monocytes Suggests Molecular Mechanisms Explaining Increased Atherosclerosis in Smokers
[…] rresponding to covariates. Whenever more than one shortest path existed, the algorithm chooses one according to a greedy search. The Dijkstra's algorithm implemented in the sp.between function of the RBGL package for R was used .Note that although in its full version the PC algorithm (Algorithm 2 in ) can asymptotically infer causal associations in a network by directing some of the edges of the s […]
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