netgsa (version 3.0)

netgsaex2: Toy example for using NetGSA on a two-class test with undirected networks

Description

This dataset contains an example for using Network-based Gene Set Analysis on a two-sample test with undirected networks.

Usage

data("netgsaex2")

Format

A list with components

A

A list ot two 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(netgsaex2)
A = netgsaex2$A
B = netgsaex2$B
x = netgsaex2$x
y = netgsaex2$y

# -Not-run-
# fit = NetGSA(A, x, y, B, lklMethod="REML", directed=FALSE)
# }