Quasiperiodic systems are important space-filling ordered structures, without decay and translational invariance. How to solve quasiperiodic systems accurately and efficiently is of great challenge. A useful approach, the projection method (PM) [J. Comput. Phys., 256: 428, 2014], 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 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 quasiperiodic spectral method (QSM) based on this framework. Results demonstrate that PM and QSM both have exponential decay, and the QSM (PM) is a generalization of the periodic Fourier spectral (pseudo-spectral) method. Then we analyze the computational complexity of PM and QSM in calculating quasiperiodic systems. The PM can use fast Fourier transform, while the QSM cannot. Moreover, we investigate the accuracy and efficiency of PM, QSM and periodic approximation method in solving the linear time-dependent quasiperiodic Schr\"{o}dinger equation.
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