Package: PhaseTypeR 1.0.5.9000

Figure 1 | Figure 2 | Figure 5 | Figure 7 | Figure 8 | Auxiliary functions

Preface | 1. Introduction | 2. The phase-type objects | 3. Univariate phase-type distributions | 3.1. The continuous univariate phase-type | 3.2. The discrete univariate phase-type | 4. Reward transformations | 4.1 Strictly positive rewards for continuous phase-type distribution | 4.2. Strictly positive integer-valued rewards for the discrete phase-type distribution | 4.3. Non-negative reward transformation for continuous phase-type distribution | 4.4. Non-negative integer valued reward transformation for discrete phase-type distribution | 5. Multivariate phase-type distributions | 5.1. The multivariate continuous phase-type | 5.2 The discrete multivariate phase-type | 6. Full simulation from a phase-type distribution | Get one simulation from a phase-type | References

1. Introduction to the package | 2. The Univariate Continuous Phase-Type Distribution: $T_{MRCA}$ and $T_{Total}$ | 2.1. Theoretical background | 2.2. Time until the most recent common ancestor ($T_{MRCA}$) | $$\boldsymbol | 2.3. Total tree length ($T_{Total}$) and the reward-transformation | 2.4. Density, distribution and quantile functions | 3. The Univariate Discrete Phase-Type Distribution: $S_{total}$, $\xi_i$ and $\xi_{k+}$ | 3.1. Theoretical background | 3.2. Total number of segregating sites ($S_{total}$) | 3.3. i-tons ($\xi_i$) | 3.4. Density, distribution and quantile functions | 4. The Multivariate Continuous Phase-Type Distribution: $Y_i$ | References