render.significant.cliques

This function highlights the significant cliques on the moralized and triangulated graph. Different colors correspond to different values of -log(pvalue)

Using Gaussian graphical models we propose a novel approach to
perform pathway analysis using gene expression. Given the
structure of a graph (a pathway) we introduce two statistical
tests to compare the mean and the concentration matrices between
two groups. Specifically, these tests can be performed on the
graph and on its connected components (cliques). The package is
based on the method described in Massa M.S., Chiogna M., Romualdi
C. (2010) <doi:10.1186/1752-0509-4-121>.

Gabriele Sales

topologyGSA

Gene Set Analysis Exploiting Pathway Topology

render.significant.cliques function

<dl><dt>info</dt>
<dd>the result of <code>clique.var.test</code> or
 <code>clique.mean.test</code>.</dd><dt>alpha</dt>
<dd>p-value cutoff to define significant cliques</dd></dl>

Arguments

Graphical display of the significant cliques — render.significant.cliques

<dl>

<dt>info</dt>
<dd>the result of <code>clique.var.test</code> or
 <code>clique.mean.test</code>.</dd>

<dt>alpha</dt>
<dd>p-value cutoff to define significant cliques</dd>

</dl>

render.significant.cliques: Graphical display of the significant cliques

Description

Usage

Arguments

References

See Also

Examples