A method for computing global longitudinal strain from cine magnetic resonance (MR) images includes automatically detecting landmark points in each MR long axis image frame included in a cine MR image sequence. A deformation field is determined between every pair of frames based on the landmark points. Myocardial pixels in the frames are labeled using a deep learning framework to yield myocardium masks. These myocardium masks are propagated to each frame using the deformation fields. A polar transformation is performed on each of the masked frames. The contours of the myocardium in each transformed frame are computed using a shortest path algorithm. Next, longitudinal strain is calculated at every pixel in the myocardium for the polar frames using the contours of the myocardium. Then, global longitudinal strain is computed by averaging the longitudinal strain at every pixel in the myocardium of the transformed frames.