Question: Error processing Infinium 450K Methylation data using Minfi
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gravatar for pm2015
3.8 years ago by
pm20150
United States
pm20150 wrote:

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

ADD COMMENTlink modified 3.8 years ago by Kasper Daniel Hansen6.4k • written 3.8 years ago by pm20150
Answer: Error processing Infinium 450K Methylation data using Minfi
0
gravatar for Kasper Daniel Hansen
3.8 years ago by
United States
Kasper Daniel Hansen6.4k wrote:
So why do you have missing values in the beta matrix?
ADD COMMENTlink modified 3.8 years ago by Dan Tenenbaum8.2k • written 3.8 years ago by Kasper Daniel Hansen6.4k
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