apCount-methods: Obtain the anti-profile score for a set of samples
In antiProfiles: Implementation of gene expression anti-profiles

Description Arguments Value Author(s) Examples

This function applies the given anti-profile to a new set of samples. Rownames in the expression matrix are used to match probenames in the AntiProfile object.

`fit`	an object of class AntiProfile as produced by the buildAntiProfile method
`expr`	a matrix of gene expression, rownames are used as identifiers

a numeric vector of anti-profile scores

Hector Corrada Bravo hcorrada@gmail.com

if (require(antiProfilesData)) {
    data(apColonData)

    # compute statistics
    colonStats = apStats(exprs(apColonData), pData(apColonData)$Status)

    # create an anti-profile, ignoring tissue-specificity of probesets, with 10 probesets
    ap = buildAntiProfile(colonStats, tissueSpec=FALSE, sigsize=10)

    # get counts for the original dataset
    counts =apCount(ap, exprs(apColonData))
 }