An integrated calcium imaging processing toolbox for the analysis of neuronal population dynamics
Fig 6
Detection of neuronal assemblies for the case study.
(A) Screenshot for the selection of the zMax threshold to determine the neuronal composition of the assemblies. After setting the smooth parameter with the slider (top-right), the threshold is chosen with a mouse click on the graph of the density distribution (red arrow). (B) Screenshot showing the topography of 3 representative assemblies (out of 42). ROIs that belong to each assembly are labeled in yellow. (C) Screenshot of two user-defined anatomical axes (see tutorial) over which assemblies will be spatially organized. Each curve is automatically colored so that the combined curves reproduce the hue gradient used in Fig 5A and 5C. The chosen curves span the rostro-caudal retinotopic axis of each tectal hemisphere. (D) Screenshot of the figure obtained displaying the spatial organization of the assemblies along the selected axes. Assemblies' ROIs are colored according to the defined axis (i.e., the position of the assemblies’ spatial centroid with respect to the defined axis). The comparison with Fig 5C confirms that assemblies reproduce the tectal retinotopic functional map.