Methods for analyzing and visualizing OCT angiography data are presented. In one embodiment, an automated method for identifying the foveal avascular zone in a two dimensional en face image generated from motion contrast data is presented. Several 3D visualization techniques are presented including one in which a particular vessel is selected in a motion contrast image and all connected vessels are highlighted. A further embodiment includes a stereoscopic visualization method. In addition, a variety of metrics for characterizing OCT angiography image data are described.