[BioC] Ringo question

[Jianping Jin]

Dear Joern,

In the PLos paper, to find ChIP-enriched regions MAs data were "rbind" (MA 
<- do.call("rbind", MAs), and then find ChIP enriched regions based on 
smoothX using "findChersOnSmoothed".

I am wondering if this function takes sample replicates into calculation. 
If not, how can I get the cher results based on mean values of replicates? 
Or the results with chers of each sample listed. So one can count chers out 
of the total number of replicates for each gene that was picked up by the 
method.

Thanks,

Jianping


##################################
Jianping Jin Ph.D.
Bioinformatics scientist
Center for Bioinformatics
Room 3133 Bioinformatics building
CB# 7104
University of Chapel Hill
Chapel Hill, NC 27599
Phone: (919)843-6105
FAX:   (919)843-3103
E-Mail: jjin at email.unc.edu