Automated imaging system for fast quantitation of neurons, cell morphology and neurite morphometry in vivo and in vitro

► We describe automated techniques to quantify neurons and neuritic processes in vitro and in vivo quickly and accurately. ► We have applied a mathematical model to quantify features of interest. ► Our system counted ~8 times as many neurons in a fraction of the time taken by manual stereological analysis. ► The system allows accurate, reliable, quantitative analysis of multidimensional samples.