run_core: Run the core model

In ncahill89/BTF: Run the Bayesian Transfer Function

Run the core model

Description

Run the core model

Usage

run_core(
  obj,
  core_species = NULL,
  prior_el = NULL,
  ChainNums = seq(1, 3),
  n.iter = 15000,
  n.burnin = 1000,
  n.thin = 7,
  validation.run = FALSE,
  use_uniform_prior = FALSE
)

Arguments

obj	An object of class BTFr from run_modern
core_species	Dataframe containing core species counts
prior_el	prior elevations if available
ChainNums	The number of MCMC chains
n.iter	The number of MCMC iterations
n.burnin	The number of burnin MCMC samples
n.thin	The number of thinning
validation.run	Set to TRUE if running validation
use_uniform_prior	change prior on elevation to be uniform

Value

a list of objects including SWLI and an mcmc array with posterior samples

Examples

test_modern_mod <- run_modern(modern_elevation = NJ_modern_elevation,
                              modern_species = NJ_modern_species,
                              n.iter = 10,
                              n.burnin = 1,
                              n.thin = 1)
test_core_mod <- run_core(test_modern_mod,
                          core_species = NJ_core_species,
                          n.iter = 10,
                          n.burnin = 1,
                          n.thin = 1)

ncahill89/BTF documentation built on June 10, 2025, 9:38 p.m.