Fig. 3

Pearson residuals from regularized NB regression represent effectively normalized scRNA-seq data. Panels a and b are analogous to Fig. 1 d and e, but calculated using Pearson residuals. c Boxplot of Pearson correlations between Pearson residuals and total cell UMI counts for each of the six gene bins. All three panels demonstrate that in contrast to log-normalized data, the level and variance of Pearson residuals is independent of sequencing depth