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@csappleby-mallinder1-14812
Last seen 6.8 years ago
Hello,
I am trying to use ChAMP to analyse the data from 2 microarray chips (Illumina Infinium EPIC arrays), however, I get this error message:
Loading data from ../chips
[read.metharray.sheet] Found the following CSV files:
[1] "../chips/Sample_Sheet.csv"
Error: !anyDuplicated(basenames) is not TRUE
This is the code I used to load my data into ChAMP:
> myLoad<-champ.load("../chips",method="minfi",arraytype="EPIC")
I am very new to using Bioconductor/ChAMP, so am unsure what to do to rectify this in order to load my data..
Any help would be greatly appreciated!
Hello:
I suspect something wrong with your Sample_Sheet.csv file. Could you sent it to champ450K@gmail.com for me to check? I suspect your basename is duplicated, which means champ can not extract name for your IDAT data.
Best
Yuan Tian
Hi Yuan Tian,
Many thanks for your assistance. I have now been able to load the data, but am now having this error message:
Error in champ.import(directory, arraytype = arraytype) :
Meth Matrix and UnMeth Matrix seems not paried correctly
Best wishes
Charlie