Hi I am new to using bioinformatics to analyse methylation array data, I am trying to get my data set into a data frame to create a summarized experiment. I have used the read.metharray.sheet function, however I keep getting an error that I am not sure how to resolve.

targets <- read.metharray.sheet(dataDirectory,pattern = run_1) Error in read.metharray.sheet(dataDirectory, pattern = run_1) : 'base' does not exists

This is the csv file and the idat files that I am using.

Any help is appreciated thank you!,

The error you see is indicating that the directory you are pointing to does not exist.

> read.metharray.sheet("thisdirdoesnotexist")
Error in read.metharray.sheet("thisdirdoesnotexist") : 
  'base' does not exists

You have to provide the correct path to the csv file.