targetCor {SHIP} | R Documentation |
Computation of the target Cor.
Description
The p \times p
target Cor is computed from the n \times
p
data matrix. It it a modified version of target G. In particular,
it tests the correlations (with a significance level of 0.05) and sets the
non-significant correlations to zero before the mean correlation
\bar{r}
is computed.
Usage
targetCor(x, genegroups)
Arguments
x |
A |
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. |
Value
A p \times p
matrix.
Author(s)
Monika Jelizarow and Vincent Guillemot
References
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.
See Also
targetCor
, targetF
,
targetG
, targetGstar
, targetGpos
.
Examples
# A short example on a toy dataset
# require(SHIP)
data(expl)
attach(expl)
tar <- targetCor(x,genegroups)
which(tar[upper.tri(tar)]!=0) # not many non zero coefficients !