Hi,
I was wondering about the following error message when running reintegrated data through MSstats. It gives this error when using "data processing" in the MSstats menu. Group comparison works fine. I previewed the file through export -> MSstats input and it shows a column with Qvalues (except for iRT peptides which contain an N/A but these are removed anyway). Is there a setting in the document that is not correct?

** Reading the data for MSstats.....
** iRT proteins/peptides are removed.
Peptides, that are used in more than one proteins, are removed.
** Truncated peaks are replaced with NA.
** For DDA datasets, three isotopic peaks per feature and run are summed.
Peptides, that are used in more than one proteins, are removed.
Error in SkylinetoMSstatsFormat(raw, filter_with_Qvalue = filter.qvalue) :
** DetectionQValue column is needed in order to filter out by Qvalue. Please add DectionQValue column in the input.

Can't finish analysis.

Many thanks.

Silvia