In this paper, we propose a comparative analysis of the use of cryptography and transformation functions to be used as biometric (signature) template protection methods. The main goal is to investigate the increasement of the biometric dataset security as well as the performance of the protected dataset in the biometric-based systems. We use the well-elaborated structures for pattern recognition (ensembles systems) on unprotected and protected dataset to measure the performance of the biometric template protection methods used in this research. The results would allow us to define the most secure used protection method which keeps an acceptable accuracy level at the same time.