Post-Processing of the Markov Chain Simulated by 'ChronoModel', 'Oxcal' or 'BCal'


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Documentation for package ‘ArchaeoPhases’ version 1.5

Help Pages

app_ArchaeoPhases Run ArchaeoPhases shiny apps
ArchaeoPhases ArchaeoPhases: Post-Processing of the Markov Chain Simulated by 'Chronomodel', 'OxCal', or 'BCal'.
coda.mcmc Create an 'mcmc.list' object for 'coda' users
CreateMinMaxGroup Construct the minimum and maximum for a group of events (phase)
CredibleInterval Bayesian credible interval
credible_interval Bayesian credible interval
DatesHiatus Test for the existence of a hiatus between two parameters
dates_hiatus Test for the existence of a hiatus between two MCMC chains.
estimate_range Estimate ranges from two or more calibrations
Events Events
ImportCSV Importing a CSV file
ImportCSV.BCal Importing a BCal csv file
MarginalPlot Plot a marginal posterior density
MarginalProba Bayesian test for anteriority / posteriority between two parameters
MarginalStatistics Marginal summary statistics
marginal_plot Plot a marginal posterior density
marginal_statistics Marginal summary statistics
MultiCredibleInterval Bayesian credible interval for a series of dates
MultiDatesPlot Plot of credible intervals or HPD regions of a series of events
MultiHPD Bayesian HPD regions for a series of MCMC chains
MultiMarginalPlot Marginal posterior densities of several events
MultiPhasePlot Several phase density plots
MultiPhasesGap Gap or hiatus between a succession of groups (for groups in temporal order constraint)
MultiPhasesTransition Transition range for a succession of groups (for groups in temporal order constraint)
MultiPhaseTimeRange Phase time range for multiple groups
MultiSuccessionPlot Successive Phases Density Plots (for phases in temporal order constraint)
multi_credible_interval Bayesian credible interval for a series of dates
multi_dates_plot Plot of credible intervals or HPD regions of a series of events
multi_hpd Bayesian HPD regions for a series of MCMC chains
multi_marginal_plot Marginal posterior densities of several events
multi_marginal_statistics Marginal summary statistics for multiple MCMC chains
new_archaeophases_mcmc Constructor for 'archaeophases_mcmc' object
new_archaeophases_plot Constructor for 'archaeophases_plot' object
OccurrencePlot Plot occurrences
occurrence_plot Plot occurrences
original_file Check for an original mcmc file
original_file.archaeophases_mcmc Check for an original mcmc file
original_file.archaeophases_plot Check for an original 'archaeophases_plot' file
PhaseDurationPlot Plot the duration of a group
PhasePlot Plot the characteristics of a group of events
Phases Phases
PhasesGap Gap or hiatus between two successive phases (for phases in temporal order constraint)
PhaseStatistics Summary statistics of a phase
PhasesTransition Transition range between two successive phases (for phases in temporal order constraint)
phases_gap Gap or hiatus between two successive phases (for phases in temporal order constraint)
PhaseTimeRange Phase time range
phase_statistics Summary statistics of a phase
plot.archaeophases_plot Recreate a graphical plot
read_bcal Read MCMC output from BCal
read_chronomodel Read MCMC output from ChronoModel
read_oxcal Read MCMC output from OxCal
reproduce.archaeophases_mcmc Reproduce an MCMC data frame
reproduce.archaeophases_plot Reproduce an ArchaeoPhases plot
SuccessionPlot Density plots of two successive groups (for groups in temporal order constraint)
TempoActivityPlot Plot the derivative of the tempo plot Bayesian estimate
TempoPlot Tempo plot
tempo_activity_plot Plot the derivative of the tempo plot Bayesian estimate
tempo_plot Tempo plot