getProfilesByBase {Starr} | R Documentation

## Get profiles of ChIP-signal over annotated features (basewise)

### Description

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.

### Usage

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

### Arguments

`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.

### Value

a list with one entry for each feature.

### Author(s)

Benedikt Zacher zacher@lmb.uni-muenchen.de

[Package Starr version 1.38.0 Index]