TABLE 2:

Summary of segmentation metrics.

Name	Metric	Mask(s) to calculate the metrics on
Number of cells per 100 squared micrometers	NC	Matched cell mask
Fraction of image foreground occupied by cells	FFC	Matched cell mask
Fraction of image background occupied by cells	1-FBC	Matched cell mask
Fraction of cell mask in foreground	FCF	Matched cell mask
Fraction of match between cells and nuclei	FMCN	Cell and nuclear masks prior to mask processing
Average CV of foreground pixels outside the cells	1/(ACVF+1)	Matched cell mask
Fraction of first PC of foreground pixels outside the cells	FPCF	Matched cell mask
Average of weighted average CV of cell type intensities over 1–10 clusters	1/(ACVC+1)	Matched nuclear mask (NUC) and cell excluding nucleus mask (CEN)
Average of weighted average fraction of the first PC of cell type intensities over 1–10 clusters	FPCC	Matched nuclear mask (NUC) and cell excluding nucleus mask (CEN)
Average of Silhouette score of clustering over 2–10 clusters	AS	Matched nuclear mask (NUC) and cell excluding nucleus mask (CEN)
Standard deviation of cell size	1/(ln(CSSD)+1)	Matched cell mask