initial code
initial R code
[cosmetic] adds various comments
adds const versions of []
R changes for easier comparison of models
switch to normal priors on logit scale for F
cosmetics - whitespace/comments/code shuffling
incorrect comment regarding MVN sampling
adds gibbs sampler for AR(1) process, simulation data and test method
split animal and human files and add human time column
cosmetic: comments, eliminate unused variables
remove optimisation of hid over F as F may change with time
[optim] adds lookup for previously identical haplotype + time
adds const [] accessors to matrix
Update to multiple times for F using a heirarchical model.

Model is F[i] ~ Normal(Alpha[i], Tau[i])

where priors on Alpha, Tau are

Alpha[i] ~ Normal(0, 0.1)
Tau[i] ~ Gamma(0.1,0.1)
updates R code for heirarchical model for F