Fig. 7

Hidden batch removal effect. Prince plots (a, b), and PCA (principle component analysis) plots (C, D) before and after hidden batch correction. The prince plots (a, b) report the association between the first ten principal components of the data and the annotation variables, principal components are represented in columns, and the sample annotations are represented in rows. The cell text labels and background color notations are the same as Fig. 4a. The row label notations with solid blue underline, dotted purple underline, dotted red outline circle, and solid red outline circle are the same as Fig. 6a. The PCA plots (c, d) report the relationship between the samples as a scatter plot. The circular outlines in the PCA plot after correction (d) are provided for better visibility of sample grouping