Re: XCMS Results Table
Reply #1 –
Quinnr,
All features are seen in the results table which pass the minfrac cut off. Minfrac is a robustness filter to make sure that the feature is seen reproducibly across the class group. If minfrac is set at 50% (ie 0.5) then we have to see feature X in at least 50% of the samples for class 1. For example, if we have 3 classes WT, MUT-1, MUT-2. Each class has 6 samples each. A feature will appear in the report if the feature is seen/detected in at least 3 samples (50%) of any one class. So, we could see feature X in the samples of WT 3 times but not see them in the MUT-1 samples or the MUT-2 samples and the feature X would still appear in the report. However, if feature Y was seen 2 times in the samples of class WT, 1 sample of MUT-1 and in 2 samples of MUT-2 then it would not pass the minfrac filter.
Hope this helps and sorry for the delay in response.
Paul