According to an aspect of the invention, an imaging apparatus includes: a read unit configured to perform a first driving that reads image signals from each of photoelectric conversion units and a second driving that simultaneously reads image signals from the photoelectric conversion units, the photoelectric conversion units receiving light that passes through pupil regions having different imaging optical systems; a compensating unit configured to perform a process of compensating a first linearity based on the image signals obtained by the first driving and a second linearity based on the image signals obtained by the second driving, each of the first and second linearities being a relation between an amount of light incident to the photoelectric conversion unit and a brightness of the image signals read by the reading unit; and a generating unit configured to generate an image signal for recording by adding the image signals compensated the first linearity by the compensating unit.