Loading Data

[nourelislam]

Hi,

I am using ballgown for differential expression to data from Stringtie, but by just loading the data by this command
bg = ballgown(dataDir = "ballgown", samplePattern = "RNAseq", pData=pheno_data)
I got the following error and I couldn't solve this problem so far.
the error :
Error in scan(file = file, what = what, sep = sep, quote = quote, dec = dec, :
line 554 did not have 12 elements

Please Help

[wyoibc]

This type of error usually suggests a file formatting issue where some fields are left empty and without the use of an explicit delimiter (e.g. delim = '\t'), an error such as this one is listed.

Given the number of row (554) and number of columns (12), the problem is with your count data. Might have to retrace your steps back to find where the formatting issue was incorporated.