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InSitu Parameters

InsituParams.Rd

InSitu Parameters

Usage

InsituParams(probs = NULL, priors = NULL, doit = NULL, nstates = NULL)

Arguments

probs

The probability of the individual being in each state.

priors

The prior probability of the individual being in each state.

doit

A flag indicating if the rate(s) should be updated in the MCMC.

nstates

The number of states (2 or 3). If NULL, inferred from probs length. For 2-state models, uses c(uncolonized, latent=0, colonized). For 3-state models, uses c(uncolonized, latent, colonized).

Value

A list of parameters for in situ testing.

Examples

InsituParams()
#> $probs
#> [1] 0.9 0.0 0.1
#> 
#> $priors
#> [1] 0.9 1.0 0.1
#> 
#> $doit
#> [1]  TRUE FALSE  TRUE
#> 
InsituParams(nstates = 2)  # c(0.9, 0.0, 0.1)
#> $probs
#> [1] 0.9 0.0 0.1
#> 
#> $priors
#> [1] 0.9 1.0 0.1
#> 
#> $doit
#> [1]  TRUE FALSE  TRUE
#> 
InsituParams(nstates = 3)  # c(0.98, 0.01, 0.01)
#> $probs
#> [1] 0.98 0.01 0.01
#> 
#> $priors
#> [1] 0.98 0.01 0.01
#> 
#> $doit
#> [1] TRUE TRUE TRUE
#>