Learn R Programming
⚠️There's a newer version (1.0-14) of this package.Take me there.

linkcomm (version 1.0-11)

Tools for Generating, Visualizing, and Analysing Link Communities in Networks

Description

Link communities reveal the nested and overlapping structure in networks, and uncover the key nodes that form connections to multiple communities. linkcomm provides a set of tools for generating, visualizing, and analysing link communities in networks of arbitrary size and type. The linkcomm package also includes tools for generating, visualizing, and analysing Overlapping Cluster Generator (OCG) communities.

Copy Link

Version

Install

install.packages('linkcomm')

Monthly Downloads

164

Version

1.0-11

License

GPL (>= 2)

Maintainer

Alex T Kalinka

Last Published

August 13th, 2014

Functions in linkcomm (1.0-11)

getEdgesIn

Extract Edge Indices from Communities
human_pp

Sample Human Protein Interactome
LinkDensities

Calculate Link Community Link Densities
getNodesIn

Extract Nodes from Communities
getCommunityMatrix

Construct a Community Membership Matrix
karate

Social Network in a Karate Club
which.communities

Extract Community Membership for Nodes
newLinkCommsAt

User-Defined Link Communities
orderCommunities

Order Link Communities According to the Dendrogram
getCommunityCentrality

Calculate Community Centrality Measures for Nodes
getCommunityConnectedness

Calculate Community Connectedness or Modularity
numberEdgesIn

Extract Node Community Membership by Edges
plotLinkCommDend

Plot a Coloured Dendrogram of Link Communities
getOCG.clusters

Generate Overlapping Cluster Generator (OCG) Communities
plot.OCG

The OCG Plotting Function
layout.spencer.circle

Calculate Node Coordinates for a Spencer Circle
get.shared.nodes

Get Nodes Shared by Communities
plotLinkCommSumm

Plot a Summary of the Link Community Algorithm Output
edge.duplicates

Find and Remove Edge Loops and Duplicates
linkcomm2clustnsee

Write a Partition File for Clust&See
plotLinkCommSummComm

Plot a Summary of the Link Communities
getLinkCommunities

Extract Link Communities from a Network
read.OCG

Read an OCG Partition File into R
getAllNestedComm

Find Nested Communities
get.community.overlaps

Find Node Overlaps between Communities
plot.linkcomm

The linkcomm Plotting Function
integer.edgelist

Convert A Network to an Integer Edgelist
plotLinkCommMembers

Plot a Community Membership Matrix for Link Communities
cutDendrogramAt

Extract Meta-Communities
getNestedHierarchies

Find Nested Structures in Communities
getClusterRelatedness

Hierarchichal Clustering of Link Communities
weighted

Sample Gene Co-Expression Network
print.linkcomm

Print a Summary of a linkcomm Object
lesmiserables

Co-Appearance Network from Les Miserables
linkcomm-package

The linkcomm package
pp_rnapol

Sample Yeast Protein Interactome
linkcomm2cytoscape

Write an Edge Attribute File for Cytoscape
corLinkcommCentrality

Correlation of Community Centrality with Classic Centrality
plotLinkCommGraph

Plot a Graph Layout of Link Communities
plotOCGraph

Plot a Graph Layout of OCG Communities
graph.feature

Make Node or Edge Graph Features
meta.communities

Produce a Set of Meta-Communities
print.OCG

Print a Summary of an OCG Object