Fast Network Modularity and Roles Computation by Simulated Annealing (Rgraph C Library Wrapper for R)

It provides functions to compute the modularity and modularity-related roles in networks. It is a wrapper around the rgraph library (Guimera & Amaral, 2005, doi:10.1038/nature03288).


Fast network modularity and roles computation by simulated annealing (rgraph C library wrapper for R).

 
> # A general network.
> library(igraphdata,igraph)
> data(karate)
> web = get.adjacency(karate,sparse=FALSE)
> netcarto(web)
[[1]]
       name module     z-score participation
1     Mr Hi      2  2.13570766  5.390625e-01
2   Actor 2      2  1.40155815  1.975309e-01
3   Actor 3      2  0.30033389  6.200000e-01
4   Actor 4      2  0.66740864  1.110223e-16
5   Actor 5      1 -0.81649658  4.444444e-01
(...)
 
[[2]]
[1] 0.4197896
 
 
> # A bipartite network
> library(bipartite)
> data(vazarr)
> netcarto(vazarr,bipartite=TRUE)
[[1]]
                       name module    z-score participation
1     Aristotelia chilensis      1  0.0000000     0.4444444
2        Alstroemeria aurea      5  0.0000000     0.6805556
3       Schinus patagonicus      1  0.0000000     0.6111111
4         Berberis darwinii      2  1.4142136     0.5000000
5           Vicia nigricans      5  0.0000000     0.5000000
6           Rosa eglanteria      2 -0.7071068     0.4489796
7          Cynanchum diemii      3  0.0000000     0.0000000
8        Ribes magellanicum      2 -0.7071068     0.0000000
9         Mutisia decurrens      4  0.0000000     0.0000000
10 Calceolaria crenatiflora      6  0.0000000     0.0000000
 
[[2]]
[1] 0.2357462

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Reference manual

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install.packages("rnetcarto")

0.2.4 by Guilhem Doulcier, a year ago


Browse source code at https://github.com/cran/rnetcarto


Authors: Guilhem Doulcier [aut, cre] (R bindings, current implementation of the simulated annealing algorithm), Roger Guimera [ctb] (Author of the original rgraph library), Daniel B. Stouffer [aut, ths]


Documentation:   PDF Manual  


GPL (>= 2) license


Suggests testthat, knitr, rmarkdown, igraph

System requirements: GNU GSL


See at CRAN