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#11 Saintexpress-int result
Hello,
I have a problem with result of saintexpress-int, instead of 0 it puts "." for missing values, so it cannot calculate any saintscore or anything else.
It seems I don't have any problem in my input files, I even deleted the ones with 0 intensity, but no luck.
Thank you in advance.
Altuğ
It seems that the data was properly run based on your list.txt file. There is a normalization step inside that scales the intensity value down in the final report (list.txt), and we replace zeros with a dot in the reporting. Unforunately the scoring algorithm must have determined that there is no significant interaction (all scores are zeros). I believe this has to do with the reproducibility across replicates. I'll look further to see if something else is wrong with the software.
Thank you,
In my input files, there is PCDH7 but in result file, PCDH7 seems completely empty. Maybe it can be because bait name and the protein name is the same but it was not a problem when I'm using PSM values.