# Bayesian Hierarchical Analysis of Cognitive Models of Choice

## Documentation for package ‘EMC2’ version 3.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

auto_thin | Automatically Thin an emc Object
auto_thin.emc | Automatically Thin an emc Object
chain_n | MCMC Chain Iterations
check | Convergence Checks for an emc Object
check.emc | Convergence Checks for an emc Object
compare | Information Criteria and Marginal Likelihoods
compare_subject | Information Criteria For Each Participant
contr.anova | Anova Style Contrast Matrix
contr.bayes | Contrast Enforcing Equal Prior Variance on each Level
contr.decreasing | Contrast Enforcing Decreasing Estimates
contr.increasing | Contrast Enforcing Increasing Estimates
credible | Posterior Credible Interval Tests
credible.emc | Posterior Credible Interval Tests
credint | Posterior Quantiles
credint.emc | Posterior Quantiles
credint.emc.prior | Posterior Quantiles
DDM | The Diffusion Decision Model
design | Specify a Design and Model
ess_summary | Effective Sample Size
ess_summary.emc | Effective Sample Size
fit | Model Estimation in EMC2
fit.emc | Model Estimation in EMC2
forstmann | Forstmann et al.'s Data
gd_summary | Gelman-Rubin Statistic
gd_summary.emc | Gelman-Rubin Statistic
get_BayesFactor | Bayes Factors
get_data | Get Data
get_data.emc | Get Data
get_design | Get Design
get_design.emc | Get Design
get_design.emc.prior | Get Design
get_pars | Filter/Manipulate Parameters from emc Object
get_prior | Get Prior
get_prior.emc | Get Prior
hypothesis | Within-Model Hypothesis Testing
hypothesis.emc | Within-Model Hypothesis Testing
init_chains | Initialize Chains
LBA | The Linear Ballistic Accumulator model
LNR | The Log-Normal Race Model
make_data | Simulate Data
make_emc | Make an emc Object
make_random_effects | Generate Subject-Level Parameters
mapped_pars | Parameter Mapping Back to the Design Factors
mapped_pars.emc | Parameter Mapping Back to the Design Factors
mapped_pars.emc.design | Parameter Mapping Back to the Design Factors
mapped_pars.emc.prior | Parameter Mapping Back to the Design Factors
merge_chains | Merge Samples
pairs_posterior | Plot Within-Chain Correlations
parameters | Return Data Frame of Parameters
parameters.emc | Return Data Frame of Parameters
parameters.emc.prior | Return Data Frame of Parameters
plot.emc | Plot Function for emc Objects
plot.emc.design | Plot method for emc.design objects
plot.emc.prior | Plot a prior
plot_cdf | Plot Defective Cumulative Distribution Functions
plot_density | Plot Defective Densities
plot_design | Plot Design
plot_design.emc | Plot Design
plot_design.emc.design | Plot Design
plot_design.emc.prior | Plot Design
plot_pars | Plots Density for Parameters
plot_relations | Plot Group-Level Relations
plot_sbc_ecdf | Plot the ECDF Difference in SBC Ranks
plot_sbc_hist | Plot the Histogram of the Observed Rank Statistics of SBC
plot_stat | Plot Statistics on Data
predict.emc | Generate Posterior/Prior Predictives
predict.emc.prior | Generate Posterior/Prior Predictives
prior | Specify Priors for the Chosen Model
prior_help | Prior Specification Information
profile_plot | Likelihood Profile Plots
RDM | The Racing Diffusion Model
recovery | Recovery Plots
recovery.emc | Recovery Plots
run_bridge_sampling | Estimating Marginal Likelihoods Using WARP-III Bridge Sampling
run_emc | Custom Function for More Controlled Model Estimation
run_sbc | Simulation-Based Calibration
sampled_pars | Get Model Parameters from a Design
sampled_pars.emc | Get Model Parameters from a Design
sampled_pars.emc.design | Get Model Parameters from a Design
sampled_pars.emc.prior | Get Model Parameters from a Design
samples_LNR | LNR Model of Forstmann Data (First 3 Subjects)
subset.emc | Shorten an emc Object
summary.emc | Summary Statistics for emc Objects
summary.emc.design | Summary method for emc.design objects
summary.emc.prior | Summary method for emc.prior objects
update2version | Update EMC Objects to the Current Version