getProfilesByBase {Starr} | R Documentation |
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.
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. |
a list with one entry for each feature.
Benedikt Zacher zacher@lmb.uni-muenchen.de