I am using the methylationCNVAnalysis v2.4 on gene pattern and I have some problems with it. I get following error message:
Error in read.metharray(basenames = commonFiles, extended = extended, :
[read.metharray] Trying to parse IDAT files with different array size but seemingly all of the same type.
You can force this by 'force=TRUE', see the man page ?read.metharray
Calls: preprocess.minfi -> read.metharray.exp -> read.metharray
Execution halted
Thanks in advance for your help and best regards