Quasiperiodic systems are important space -filling ordered structures, without decay and translational invariance. How to solve quasiperiodic systems accurately and efficiently is a great challenge. A useful approach, the projection method (PM) [J. Comput. Phys., 256 (2014), pp. 428440], has been proposed to compute quasiperiodic systems. Various studies have demonstrated that the PM is an accurate and efficient method to solve quasiperiodic systems. However, there is a lack of theoretical analysis of the PM. In this paper, we present a rigorous convergence analysis of the PM by establishing a mathematical framework of quasiperiodic functions and their high -dimensional periodic functions. We also give a theoretical analysis of the quasiperiodic spectral method (QSM) based on this framework. Results demonstrate that the PM and QSM both have exponential decay, and the QSM (PM) is a generalization of the periodic Fourier spectral (pseudospectral) method. Then, we analyze the computational complexity of the PM and QSM in calculating quasiperiodic systems. The PM can use a fast Fourier transform, while the QSM cannot. Moreover, we investigate the accuracy and efficiency of the PM, QSM, and periodic approximation method in solving the linear time -dependent quasiperiodic Schrodinger equation.