Fig. 5

Quantitative comparison of 2D MGX and 2D SurfCut output. a Z-projections of cell contour images extracted either with MGX (similar to Figs. 1g and 4m) or b with SurfCut (similar to Figs. 2e and 4j) from the same original stack. c–d Same images as in a and b, respectively, segmented with PaCeQuant. Below is the total number of cell detected in the eight samples for each method. e Boxplot of the circularity values, representing each data point (each point corresponding to one cell) and their distribution for both cell contour extraction method. Wilcoxon rank-sum test of the comparison between both methods output a p value of 0.88. f Table reporting for each PaCeQuant shape parameter, the mean and standard deviation (sd) for both the MGX and SurfCut method, and the p value of the Wilcoxon rank-sum test comparing the two methods. Scale bars 50 μm