For this type mex –setup c in the Matlab command window. First, check if you have a C language compiler compatible with Matlab installed on your machine. Installing ‘InPolygon’ third party function. The data can be analyzed using Ripley's K and L functions, point correlation function (PCF), and using Delaunay triangulation (graph-based segmentation) (see "Data clustering" red box). The different types of ROI can be drawn: polygonal or polygonal freehand ROI (No. Data visualization and analysis require prior creation of a region of interest (ROI) in the main axes. The data can be visualized using still, or animated scatter plots (see "Data visualization" box), Voronoi diagrams, and Delaunay triangulation (see "Data clustering" red box). Multicolor data can be aligned automatically (see the main menu bar, "2–3 color Voronoi") or manually (see "Channel alignment" red box). The single-molecule data can be filtered by applying the threshold to photon number (PN), localization precision (LP), and the Voronoi diagram density (VD) (see "Filtering parameters" red box). The raw dSTORM data is converted to Matlab ".mat" file format that can be loaded as a single color file and combined to a multicolor file (see "Load data" red box). The main menu bar permits, among others, importing the raw single-molecule data in the different formats (here, only Nikon NSTORM 'txt' format is discussed). Different sections discussed in the protocol are highlighted with red boxes.
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