anovir-package          anovir: Analysis of Virulence
av_long_infected        Average longevity: estimate for infected hosts
av_long_uninfected      Average longevity: estimate for uninfected
                        hosts
check_data              Checks data are correctly described for models
conf_ints_virulence     Approximate 95% confidence intervals for
                        virulence
data_blanford           Full data from Blanford et al (2012)
data_lorenz             A subset of data from Lorenz & Koella (2011)
data_parker             Full data from Parker et al (2014)
etd_infected            Expected time of death: infected hosts
etd_uninfected          Expected time of death: uninfected hosts
nll_basic               Negative log-likelihood function: basic model
nll_basic_logscale      Negative log-likelihood function: basic model
                        on logscale
nll_controls            Negative log-likelihood function: control data
                        only
nll_exposed_infected    Negative log-likelihood function:
                        exposed-infected
nll_frailty             Negative log-likelihood function: frailty
nll_frailty_correlated
                        Negative log-likelihood function: correlated
                        frailty model
nll_frailty_logscale    Negative log-likelihood function: frailty
                        variables on logscale
nll_frailty_shared      Negative log-likelihood function: frailty
                        shared
nll_proportional_virulence
                        Negative log-likelihood function: nll
                        proportional virulence
nll_recovery            Negative log-likelihood function: recovery
                        model
nll_recovery_II         Negative log-likelihood function: recovery
                        model, no background mortality
nll_two_inf_subpops_obs
                        Negative log-likelihood function: two observed
                        subpopulations of infected hosts
nll_two_inf_subpops_unobs
                        Negative log-likelihood function: two
                        unobserved subpopulations of infected hosts
recovery_data           Simulated recovery data
recovery_data_II        Simulated recovery data, with no background
                        mortality
sim_data_nll_basic      Function simulating survival data for nll_basic
