Hi, I'm using DEXseq for the first time and successfully created the gff file and .counts files with the py scripts, and sampleTable file from within R, as specified, but am getting the following error when creating an ecs.
i do have all the files in the same wd on my desktop, although the gff and counts files were created on a different machine and moved over.
sampleTable$countFile does read back the correct number of levels and file names
any ideas; is it not recognizing the gff?
thx
onyaw
> ecs <- read.HTSeqCounts( sampleTable$countFile,sampleTable,"C57BL6J_dexseq.gff" )
Error in read.table(x, header = FALSE, stringsAsFactors = FALSE) :
'file' must be a character string or connection
i do have all the files in the same wd on my desktop, although the gff and counts files were created on a different machine and moved over.
sampleTable$countFile does read back the correct number of levels and file names
any ideas; is it not recognizing the gff?
thx
onyaw
> ecs <- read.HTSeqCounts( sampleTable$countFile,sampleTable,"C57BL6J_dexseq.gff" )
Error in read.table(x, header = FALSE, stringsAsFactors = FALSE) :
'file' must be a character string or connection
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