Description Usage Arguments Value Author(s) References See Also Examples
The p x p target G is computed from the n x p data matrix. It is defined as follows (i,j = 1,...,p):
sii if i=j ; r√{s_{ii}s_{jj}} if i~j ; 0 otherwise
where r is the average of sample correlations and sij denotes the entry of the unbiased covariance matrix in row i, column j. The notation i ~ j means that genes i and j are connected, i.e. genes i and j are in the same gene functional group.
1 | targetG(x, genegroups)
|
x |
A n x p data matrix. |
genegroups |
A list of genes obtained using the database KEGG, where each entry itself is a list of pathway names this genes belongs to. If a gene does not belong to any gene functional group, the entry is NA. |
A p x p matrix.
Monika Jelizarow and Vincent Guillemot
J. Schaefer and K. Strimmer, 2005. A shrinkage approach to large-scale covariance matrix estimation and implications for functional genomics. Statist. Appl. Genet. Mol. Biol. 4:32.
M. Jelizarow, V. Guillemot, A. Tenenhaus, K. Strimmer, A.-L. Boulesteix, 2010. Over-optimism in bioinformatics: an illustration. Bioinformatics. Accepted.
targetCor
,
targetF
,
targetG
,
targetGstar
,
targetGpos
.
1 2 3 4 5 6 |
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.