By default, the normalization constants sij are considered constant within a sample, sij=sj, and are estimated with the median-of-ratios method previously described and used in DESeq [4] and DEXSeq [30]: \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \usepackage{upgreek} \setlength{\oddsidemargin}{-69pt} \begin{document} $$s_{j} = {\underset{i:\,K_{i}^{\text{R}}\neq 0}{\text{median}}}\, \frac{K_{ij}}{K^{\text{R}}_{i}}\quad\text{with}\quad K^{\text{R}}_{i} = \left(\prod\limits_{j=1}^{m} K_{ij}\right)^{1/m}. $$ \end{document}sj=mediani:KiR≠0KijKiRwithKiR=∏j=1mKij1/m.
