Joint Bayesian 4PL Models for Thermal Load Sensitivity

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Documentation for package ‘bayesTLS’ version 1.0.0

• DESCRIPTION file
• Package NEWS
• Package README

Help Pages

aphid_tdt	Cereal-aphid lethal-TDT data, three species across three ages
bayes_R2_tls	Bayesian R^2 for a fitted TDT workflow
clock_to_minutes	Convert various clock formats to minutes
derive_tdt_curve	Posterior LT_x curve: time to reach a survival target at each temperature
derive_tdt_landscape	Posterior survival landscape across the temperature × duration plane
derive_temperature_for_duration	Temperature at which survival equals a target after a fixed exposure
derive_z	Per-draw thermal sensitivity z directly from the joint posterior
diagnose_tdt_fit	Sampling diagnostics for a fitted TDT workflow
dsuzukii	Drosophila suzukii multi-trait thermal-tolerance data
extract_4pl_pars	Per-draw natural-scale 4PL parameters from a fitted workflow
fit_4pl	Fit the joint Bayesian 4PL to standardised TDT data
format_interval	Format a posterior median plus credible interval as a single string
get_4pl_est	Posterior estimates of the natural-scale 4PL parameters (draws or summary)
get_brmsfit	Extract the fitted brms model from a workflow
get_hi_draws	Posterior draws of heat-injury trajectory
get_surv_draws	Posterior draws of survival
get_tls_est	Extract TLS estimates (draws or summary) from a 'tls' object
has_fit	Whether a workflow has been fitted
make_4pl_formula	Build the brms formula for the joint Bayesian 4PL
make_4pl_priors	Default weakly informative priors for the joint Bayesian 4PL
make_temperature_scenarios	Build reference temperature traces for heat-injury validation
planted_dose_from_trace	Analytical heat-injury accumulation along a temperature trace
plot.bayes_tls	MCMC mixing plot for a fitted 'bayes_tls' workflow
plot_heat_injury	Plot HI and survival trajectories from 'predict_heat_injury()'
plot_repair_rate	Plot a Sharpe-Schoolfield repair TPC
plot_survival_curves	Plot posterior survival curves
plot_tdt_curve	Plot a posterior LT_x curve
plot_tdt_landscape	Plot the TDT survival landscape as a heatmap
plot_temperature_density	Plot a posterior temperature density (e.g. CTmax or T_crit)
plot_temperature_scenarios	Plot the three reference temperature scenarios
predict_heat_injury	Predict heat injury and survival under a fluctuating temperature trace
predict_survival_curves	Posterior survival curves on a temperature × duration grid
print.bayes_tls	Compact print method for a 'bayes_tls' workflow
repair_rate_schoolfield	Sharpe-Schoolfield thermal performance curve for repair rate
snowgum_psii	Snow gum leaf PSII functional-impairment thermal-tolerance data
standardize_data	Standardise a raw survival / proportion dataset for the TDT function library
summarise_observed_survival	Summarise observed survival counts to mean ± SE per (temp, duration) cell
summary.bayes_tls	Summarise a fitted 'bayes_tls' workflow
tdt_parameter_table	Posterior parameter table on the natural scale
tdt_quantile	Quantile wrapper with TDT-friendly defaults
theme_tdt	Project ggplot theme
tls	Thermal load sensitivity summaries from any fitted 4PL model
tls_ctmax	Thermal load sensitivity summaries from any fitted 4PL model
tls_tcrit	Thermal load sensitivity summaries from any fitted 4PL model
tls_z	Thermal load sensitivity summaries from any fitted 4PL model
ts_ci	Uncertainty for the classical two-stage TDT quantities
ts_curve	Median LT-vs-temperature line from a two-stage fit
ts_stage1	Stage 1 of the classical two-stage TDT pipeline
ts_stage2	Stage 2 of the classical two-stage TDT pipeline
zebrafish_o2	Zebrafish lethal-TDT data across an oxygen gradient