Hi there,

I am new to methylation analyses and have been trying to load and read my idat data and csv. Below you can see a sample of my csv

``` Basename, Sample_Name, Sample_Group, Sentrix_ID, Sentrix_Position 206693320037_R01C01, 3707, AVM, 206693320037, R01C01 206693320037_R02C01, 3781, AVM, 206693320037, R02C01 206693320037_R03C01, 3661, AVM, 206693320037, R03C01 206693320037_R04C01, 3669, AVM, 206693320037, R04C01 206693320037_R05C01, 3820, AVM, 206693320037, R05C01 206693320037_R06C01, 4112, AVM, 206693320037, R06C01 206693320037_R07C01, 4114, AVM, 206693320037, R07C01 206693320037_R08C01, 4115, AVM, 206693320037, R08C01

The code I ran is the following (based off some help with ChatGPT...):

```> idatFiles <- list.files(idatPath, pattern = '.idat", full.names = TRUE')

idatPath <- "/Users/anamansur/Desktop/epigenomics/idat"

idatFiles <- list.files(idatPath, pattern = '.idat", full.names = TRUE')

sampleSheetPath <- "/Users/anamansur/Desktop/epigenomics/SampleSheet.csv"

sampleSheet <- read.csv(sampleSheetPath, header = TRUE)

methylationData <- read.metharray.exp(base = idatPath, targets = sampleSheet)

The error I get is: Error in read.metharray.exp(base = idatPath, targets = sampleSheet) : Need 'Basename' amongst the column names of 'targets'

I checked and Basename is a column though. I tried trimming

colnames(sampleSheet) <- trimws(colnames(sampleSheet))

and printing: but Basename is already there...

print(colnames(sampleSheet)) [1] "Basename..Sample_Name..Sample_Group..Sentrix_ID..Sentrix_Position"

I don't know how to get around this issue to move forward with preprocessing. Any tips? Thank you