Hi everyone, in my group the question popped up whether it is possible to perform the FIRMA analysis on a subset of a number of samples that have been normalized all together. For example: Assume we have a data set of 6 different groups with different numbers of samples and we want to investigate differences in between 2 certain groups (e.g. control vs. treatment 1), would it be feasible to calculate the FIRMA scores just for the corresponding samples to make sure the scores are independent from the other samples? If I understand the FIRMA concept correctly it is not, as you pass the fitted model for all of the samples on to the fit function to calculate the scores, but I would like to be certain on that point.
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