Neuronal Profiling

A non-transitory machine readable storage medium comprising a set of instructions for causing a fluorescence detection device to carry out a method comprising

• (a) obtaining cell body images and cell body extension images from multiple cells in a population of cells comprising cells with cell body extensions, wherein the cells and cell body extensions are labeled with reporters, and wherein the cell body images and the cell body extension images are obtained using a fluorescence detection device to detect signals emitted by the reporters;
• (b) processing the cell body images to create cell body masks and to validate cell bodies in the cell body masks, and processing the cell body extension images to create cell body extension masks, which are processed to produce cell body extension skeletons;
• (c) untangling cell body extensions from multiple cells, wherein the untangling comprises:
• (i) identifying end points on the cell body extension skeletons;
• (ii) identifying and removing critical points from the cell body extension skeletons;
• and
• (iii) tracing the end points and the critical points to untangle cell body extensions in the cell body extension skeletons;
• and
• (d) assigning untangled cell body extensions to the validated cell bodies.