netgsa (version 3.0)

netgsaex3: 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 \(p \times n\) 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

# NOT RUN {
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)
# }