In the previous work, the first author established an algorithm to compute the Morse index and the nullity of an n-periodic minimal surface in Rn. In fact, the Morse index can be translated into the number of negative eigenvalues of a real symmetric matrix and the nullity can be translated into the number of zero-eigenvalue of a Hermitian matrix. The two key matrices consist of periods of the abelian differentials of the second kind on a minimal surface, and the signature of the Hermitian matrix gives a new invariant of a minimal surface. On the other hand, H family, rPD family, tP family, tD family, and tCLP family of triply periodic minimal surfaces in R3 have been studied in physics, chemistry, and crystallography. In this paper, we first determine the two key matrices for the five families explicitly. As its applications, by numerical arguments, we compute the Morse indices, nullities, and signatures for the five families.