gravatar for Clyndas

2 hours ago by

Hi,

I am using RnBeads to analyze 450K array data. In the data preprocessing step (after data import), but keep getting this error:

Error in if (any(methylated(x) <= 0)) { :
missing value where TRUE/FALSE needed

Here is the relevant code:
result <- rnb.run.import(data.source=data.source, data.type="infinium.idat.dir", dir.reports=report.dir)
rnb.set <- result$rnb.set
rnb.set.unfiltered <- rnb.set
result <- rnb.run.preprocessing(rnb.set.unfiltered, dir.reports=report.dir)

I tried to separate the filtering step from the normalization step, but got the same error even when I use the unfiltered data.

Can anyone give some ideas of how to fix it?

Thanks for your help in advance!!



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