19 November 2019 3 7K Report

I'm using TAC software 4.0.2 (Affimetrix) for the first time to analize differential gene expression in two groups of samples (control and treatment). I have problems with the normalization step of .CEL files. As far as I concern it is only possible to normalize data by choosing one of the variables of the samples (one of the colum of the ".txt" file) as "normalization Group". Doing it this way the boxplot of my samples are not quite good eventhough the PCA graphs are ok. I'm trying to improve this boxplot changing the normalization group but I still don't get it. Could someone give me some advice? Is there any other way to obtain normalized data?

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