R: Toy example for using 'NetGSA' on a three-class test with...
netgsaex3
R Documentation
Toy example for using NetGSA on a three-class test with undirected networks
Description
This dataset contains an example for using Network-based Gene Set Analysis on a multi-sample test with undirected networks.
Usage
data("netgsaex3")
Format
A list with components
A
A list ot three weighted adjacency matrices.
x
The p x n data matrix.
y
The vector of class indicators of length n.
B
The npath by p indicator matrix for pathways.
References
Ma, J., Shojaie, A. & Michailidis, G. (2014). Network-based pathway enrichment analysis with incomplete network information. http://arxiv.org/abs/1411.7919.
Examples
data(netgsaex3)
A = netgsaex3$A
B = netgsaex3$B
x = netgsaex3$x
y = netgsaex3$y
# -Not-run-
# fit = NetGSA(A, x, y, B, lklMethod="REML", directed=FALSE)