1. An imaging apparatus, comprising: an imaging unit that generates a left-eye image and a right-eye image mutually having a parallax by capturing a subject; an image processing unit that performs special effect processing; a region setting unit that automatically sets a region including the subject contained in each of the left-eye image and the right-eye image as a region where the image processing unit performs the special effect processing, wherein the image processing unit performs image processing other than the special effect processing on areas other than the set region contained in each of the left-eye image and the right-eye image; a parallax amount calculation unit that calculates a parallax amount of the left-eye image and the right-eye image by superimposing a similar region contained in each of the left-eye image and the right-eye image; an isolation unit that isolates a short-range region and a background region from the region of each of the left-eye image and the right-eye image in accordance with the parallax amount calculated by the parallax amount calculation unit; and an image processing setting unit that sets the background region as the region where the image processing unit performs the special effect processing.