I am aware that baseMean is the mean of normalized counts and that normalized counts are calculated by: 1. Taking the mean of a gene across samples 2. Dividing each gene sample by the mean 3. Defining the size factor as the median of the genes divided by the mean
But what exactly is the size factor and what is it used for? It is my understanding that the baseMean corrects issues that arise when very few number of genes are very highly expressed in one condition but not another. Thank you for your help!