wto {EGAnet} | R Documentation |
Weighted Topological Overlap
Description
Computes weighted topological overlap following the Novick et al. (2009) definition
Usage
wto(network, signed = TRUE, diagonal.zero = TRUE)
Arguments
network |
Symmetric matrix or data frame. A symmetric network |
signed |
Boolean (length = 1).
Whether the signed version should be used.
Defaults to |
diagonal.zero |
Boolean (length = 1).
Whether diagonal of overlap matrix should be set to zero.
Defaults to |
Value
A symmetric matrix of weighted topological overlap values between each pair of variables
References
Original formalization
Nowick, K., Gernat, T., Almaas, E., & Stubbs, L. (2009).
Differences in human and chimpanzee gene expression patterns define an evolving network of transcription factors in brain.
Proceedings of the National Academy of Sciences, 106, 22358-22363.
Examples
# Obtain network
network <- network.estimation(wmt2[,7:24], model = "glasso")
# Compute wTO
wto(network)