[BioC] Starr package: cmarrt.ma error

Paul paul.guilhamon.10 at ucl.ac.uk
Thu Apr 3 23:23:24 CEST 2014

Zhu, Lihua (Julie <Julie.Zhu at ...> writes:

> Benedikt,
> I encountered the following error using Starr package to analyze chip-chip 
data from GeneChip Human
> Promoter 1.0R Array 
> http://www.affymetrix.com/estore/esearch/search.jsp?
pd=131461&N=4294967292. Could you please help?
> In addition, there are two bpmap files: Hs_PromPF_v02-3_NCBIv34.bpmap and
> Hs_PromPR_v02-3_NCBIv34.bpmap for this array. Is there a way to pass both 
bpmap files to readBpmap function?
> Many thanks for your help in advance!
> Best regards,
> Julie
> >h3k27R_loess_ratio <- getRatio(h3k27R_loess, ips, controls, description, 
fkt=median, featureData=F)
> Calculating ratio
> Building new ExpressionSet
> >peaks <- cmarrt.ma(h3k27R_loess_ratio, probeAnnoR, chr=NULL, M=NULL, 
> Error in probeAnno[paste(x, "start", sep = ".")] :
>   No mapping 'Bs:Jan_2004;NC_000964.start' in this 'probeAnno' object.

Hi Julie,
Just wondering if you got an answer to your question or figured it out 
somehow? I'm getting the exact same error (I'm analyzing medip-chip data)
No mapping 'Bs: Jan_2004;NC_000964.start' in this 'probeAnno' object.



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