targetGstar: Computation of the target Gstar.

Description Usage Arguments Value Author(s) References See Also Examples

View source: R/targetGstar.R

Description

The p x p target Gstar is computed from the n x p data matrix. It it a modified version of target G. In particular, it involves two parameters for the correlation (a positive and a negative one) instead of the single parameter r in order to account for negatively correlated genes within the same pathway

Usage

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targetGstar(x, genegroups)

Arguments

x

A n \times 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.

Value

A p x p matrix.

Author(s)

Monika Jelizarow and Vincent Guillemot

References

See Also

targetCor, targetF, targetG, targetGstar, targetGpos.

Examples

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# A short example on a toy dataset
# require(SHIP)
data(expl)
attach(expl)
tar <- targetGstar(x,genegroups)
which(tar[upper.tri(tar)]!=0) # not many non zero coefficients !

SHIP documentation built on May 1, 2019, 8:29 p.m.