getIntensites: Get profile of anntated features from a probe mapping
In Starr: Simple tiling array analysis of Affymetrix ChIP-chip data

Description Usage Arguments Value Author(s)

This function gets intensities from an ExpressionSet with a given mapping from the mapFeatures function. It is called by getProfiles, if method ”middle” is chosen.

1	getIntensities(eSet, chr, mapping, gffAnno, upstream, downstream)

`eSet`	an ExpressionSet, containing on sample.
`gffAnno`	a data frame containing the annotation of the features of interest
`upstream`	how many basepairs upstream of the feature start (feature start on the crick strand is end in gffAnno) should be taken.
`upstream`	how many basepairs downtream of the feature start (feature end on the crick strand is start in gffAnno) should be taken.
`chr`	character vector of chromosomes, from which the features should be taken.
`mapping`	a mapping of, which was constructed by the mapFeatures function