Error processing Infinium 450K Methylation data using Minfi
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pm2015 • 0
@pm2015-8878
Last seen 5.3 years ago
United States

Hello All

I am trying to process my Illumina 450 K methylation array data using Minfi but I keep getting the following error after using the function dmpFinder. 

Error in smooth.spline(lambda, vec.p0, w = ncs.weights, df = 3) : 
  missing or infinite values in inputs are not allowed
In addition: Warning message:
Partial NA coefficients for 9542 probe(s)

I have tried removing the NAs, used beta threshold, tried different preprocessing methods etc. but nothing seems to work. I am fairly new to R. Any help would be highly appreciated. 

Here's my session info:

R version 3.2.2 (2015-08-14)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

Thanks

minfi software error methylation illumina450k • 903 views
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@kasper-daniel-hansen-2979
Last seen 3 months ago
United States
So why do you have missing values in the beta matrix?
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