getProfilesByBase: Get profiles of ChIP-signal over annotated features...
In Starr: Simple tiling array analysis of Affymetrix ChIP-chip data

Description Usage Arguments Value Author(s)

This function associates the measured ChIP signals to annotated features and stores the profile of each feature in a list. It is called by getProfiles, if method ”basewise” is chosen. User should call this function.

1	getProfilesByBase(eSet, probeAnno, chr, gffAnno, upstream, downstream)

`eSet`	an ExpressionSet, containing on sample.
`probeAnno`	a probeAnno object for the given ExpressionSet
`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.