Persistent homological 3D cell detection

Abstract

Advances in experimental technologies have induced the need for 3D cell data analysis. However, we lack a simple method that directly analyzes 3D data. 2D methods are insufficient when cells overlap orthogonal to slices. Experimental constraints sometimes make the step size of slices greater than a pixel in each slice. We present a 3D figure detection technology using persistent homology usable even in the above situations. Also, the parameters have clear geometric meanings. Thus, our method serves as an easy-to-use 3D cell detection technology that directly uses 3D data and respects experimental constraints.