Table 1.

Summary of synaptic punctum and spot detection methods

Name	Reference	Training data needed	Pre- and post- synaptic channels	3D	Complex back-ground	Manual intervention per image	GUI	Platform
SynQuant	This work	No	Yes	Yes	Yes	No	Yes	Fiji plug-in
PFSD	Simhal et al. (2018)	No	Yes	Yes	No	No	No	MATLAB, Python
SynD	Schmitz et al. (2011)	No	No	No	No	Yes	Yes	MATLAB
SynPAnal	Danielson and Sang (2014)	No	No	No	No	Yes	Yes	Java App
BGM3D	Feng et al. (2012)	No	No	Yes	No	No	No	MATLAB
MP-HD	Rezatofighi et al. (2012)	No	No	Yes	Yes	No	No	MATLAB
MS-VST	Zhang et al. (2007)	No	No	Yes	Yes	No	No	Binary file, C++
DoGNet	Kulikov et al. (2019)	Yes	Yes	Yes	Yes	No	No	Python
Bouton	Bass et al. (2017)	Yes	No	Yes	Yes	No	Yes	MATLAB
U-Net	Ronneberger et al. (2015)	Yes	Yes	Yes	Yes	No	No	Python