size
: The length of the list, corresponding to the number of
samples saved from the MCMC.
step
: A vector of integers of length size
, storing the
steps of the MCMC corresponding to the saved samples.
post
: A numeric vector of length size
, storing
log-posterior values.
like
: A numeric vector of length size
, storing
log-likelihood values.
prior
: A numeric vector of length size
,
storing log-prior values.
alpha
: A list of length size
. Each item of the list is
an integer vector of length data$N
, storing indices (from 1 to N) of
infectors for each case.
t_inf
: A list of length size
. Each item of the list is
an integer vector of length data$N
, storing dates of infections for
each case.
mu
: A numeric vector of length size
, storing values of
the mutation rate.
kappa
: A list of length size
. Each item of the list is
an integer vector of length data$N
, storing the number of generations
before the last sampled ancestor for each case.
pi
: A numeric vector of length size
, storing values of
the reporting probability.
eps
: A numeric vector of length size
, storing values of
the contact reporting coverage.
lambda
: A numeric vector of length size
, storing values of
the non-infectious contact rate.
counter
: A counter used to keep track of the current iteration
of the MCMC (used internally).