SIR_LNA_ESlice_MCMC2: theta1 theta2 Trajectory matrix: in log-scale state Initial...

In MingweiWilliamTang/LNAphyloDyn: Bayesian inference on coalescent-based phylodynamics using linear noise approximation

Description

Infectious rate and recovery rate: theta1, theta2 Scale parameter: lambda

Usage

SIR_LNA_ESlice_MCMC2(state, Init, times, t_correct, gridsize = 50,
  niter = 1000, burn = 500, thin = 5)

Details

prior s1: s1 = theta1 log(1/s1) ~ gamma(50,5) propose function random walk Uniform[-0.5,0.5] on log space

s2: theta2/theta1 proposal function: random walk Uniform[-0.5,0.5] Normal(20000,2000)

lambda log(lambda) ~ gamma(16,4) propose random walk uniform [-0.5,0.5] on logspace

log(p1/p3) ~ gamma(60,10) log(p2/p3) ~ gamma(60,20)

MingweiWilliamTang/LNAphyloDyn documentation built on Oct. 23, 2019, 11:56 a.m.