Fig. 6: Pathway imputation comparison of PASTA and six other methods for CosMX human frontal cortex data.
From: Accurate imputation of pathway-specific gene expression in spatial transcriptomics with PASTA
A True pathway expressions and the predictions from different methods. B Correlation of the predicted and true pathway expressions over 40 pathways. Each Dot represents a correlation value. The center bar represents the median value, and the upper/lower bound shows the 25%/75% quartile. Two sided Wilcoxon rank sum test shows significant better predictions from PASTA compared to the other methods (P < 0.001, *** indicates significant comparisons). C Calibration scores for different methods. We calculated the calibration score for each of the 13 cell types, and summarized the medians in this box plot. The center bar represents the median value, and the upper/lower bound of the box shows the 25%/75% quartile with whiskers extending to the minimum and maximum values. D The distribution of calibration score of all cells. E Pesudotime of 14449 layer 2 cells (L2, outer granular layer) and layer 3 cells (L3, outer pyramidal layer), 8801 layer 4 cells (L4, inner granular layer), and 7609 layer 6 cells (L6, polymorphic layer) from the trajectory analysis. Each Dot represents a pseudo-development time, and the center bar represents the median value. Source data are provided as a Source Data file.
