clustCoefPercentage: Calculate the clustering coefficient as a percentage

In CeTF: Coexpression for Transcription Factors using Regulatory Impact Factors and Partial Correlation and Information Theory analysis

Description

Given an adjacency matrix, calculate the clustering coefficient as a percentage of non-zero adjacencies.

Usage

clustCoefPercentage(mat)

Arguments

mat	An adjacency matrix. Calculating the clustering coefficient percentage only makes sense if some connections are zero i.e. no connection.

Value

Returns the clustering coefficient as a porcentage.

References

Nathan S. Watson-Haigh, Haja N. Kadarmideen, and Antonio Reverter (2010). PCIT: an R package for weighted gene co-expression networks based on partial correlation and information theory approaches. Bioinformatics. 26(3) 411-413. https://academic.oup.com/bioinformatics/article/26/3/411/215002

Examples

# loading a simulated counts data
data('simNorm')

# running PCIT analysis
results <- PCIT(simNorm)

# getting the clustering coefficient as percentage
clustCoefPercentage(results$adj_sig)

CeTF documentation built on Nov. 25, 2020, 2 a.m.