# The linkcomm package

### Description

`linkcomm`

provides tools for the generation, visualization, and analysis of link communities in networks of arbitrary size and type.

### Details

Link communities reveal the nested and overlapping structure in networks, and uncover the key nodes that form connections to multiple communities. `linkcomm`

provides tools for generating, visualizing, and analysing link communities in networks of arbitrary size and type.

For a more detailed overview of how to use the package:

`vignette(topic = "linkcomm", package = "linkcomm")`

To run an interactive demonstration of `linkcomm`

within **R**:

`demo(topic = "linkcomm", package = "linkcomm")`

### Author(s)

Alex T. Kalinka alex.t.kalinka@gmail.com

### References

Ahn, Y.Y., Bagrow, J.P., and Lehmann, S. (2010). Link communities reveal multiscale complexity in networks. *Nature* **466**, 761-764.

Becker, E., Robisson, B., Chapple, C.E., Guenoche, A. and Brun, C. (2012) Multifunctional proteins revealed by overlapping clustering in protein interaction network. *Bioinformatics* **28**, 84-90.

Kalinka, A.T. and Tomancak, P. (2011). linkcomm: an R package for the generation, visualization, and analysis of link communities in networks of arbitrary size and type. *Bioinformatics* **27**, 2011-2012.

Spencer, R. (2010). http://scaledinnovation.com/analytics/communities/comlinks.html

### See Also

`getLinkCommunities`

, `getOCG.clusters`

, `plot.linkcomm`

, `pp_rnapol`

, `lesmiserables`

, `karate`

, `weighted`

, `igraph`

, `RColorBrewer`

, `grid`

### Examples

1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 | ```
## Generate graph and extract link communities.
g <- swiss[,3:4]
lc <- getLinkCommunities(g)
## Plot a graph layout of the link communities.
plot(lc, type = "graph")
## Use a Spencer circle layout.
plot(lc, type = "graph", layout = "spencer.circle")
## Calculate a community-based measure of node centrality.
getCommunityCentrality(lc)
## Find nested communities.
getAllNestedComm(lc)
## Uncover the relatedness between communities.
getClusterRelatedness(lc)
``` |