Table 2.

Summary of available preprocessing packages for mesoscale imaging data.

Processing Phase (see 2.1.2)		Name of software package
1	Input Triage	BIS-MID	MouseWOI	Mesoscale brain explorer	VOBI One
	File conversion	Applied	-	-	-
2	Preprocessing	Operations in orange are spatial and green are temporal
a	Brain mask creation	Manual	Manual	Manual	-
b	Smoothing	√	√	X	X
	Motion correction	√	X	√	X
	Spatial down sampling	Factor of 2	Factor of 2	X	X
	Spatial detrending	X	√	X	X
	Sharpening	X	X	√	X
	Luminance correction	X	√	X	√
	Photobleach correction	√	X	X	√
	Heartbeat frequency estimation	X	X	X	√
	Spectral denoising	X	X	X	√
	Wavelength regression	√	X	X	X
	Bandpass filtering	√	√	√	X
	Temporal detrending	X	√	X	√
	Temporal down sampling	X	Factor of 2	X	X
	Normalized fluorescence (dF/F)	√	X	√	√
	Hemodynamic correction	N/A *	√	X	N/A **
	Common space alignment	√	√	X	X
	Global signal regression	√	√	X	X
	Band pass filtering	√	√	√	X
3	Quality control
a	Framewise displacement	Output	-	Output	-
b	Brain mask	-	Output	-	-

^*For dual-wavelength mesoscale imaging data, wavelength regression is a hemodynamic correction

^**Correction is performed for estimated heartbeat frequency