Table 2:

Formulas for distance measures implemented in minicore. Let X_i, Y_i denote the i^th observation (gene) for cells X and Y. Let ${\widehat{X}}_i$ and ${\widehat{Y}}_i$ denote the scaled (normalized by total cell-wide count) version of this entry. These all belong to the class of Bregman divergences, except the JSD which is a convex combination of Bregman divergences.

Name	Abbreviation	Formula
Squared Euclidean	SQE	${{\sum }_i(X_i-Y_i)}^2$
Kullbeck-Liebler Divergence	KLD	${\sum }_i{\widehat{X}}_i\times \log \frac{{\widehat{X}}_i}{{\widehat{Y}}_i}$
Jensen-Shannon Divergence	JSD	$\frac{1}{2}\times (KLD(X,\frac{X+Y}{2})+KLD(Y,\frac{X+Y}{2}))$
Bhattacharyya Metric	BATMET	$\sqrt{1-\sqrt{X}·\sqrt{Y}}$