Files in maxbiostat/BinaryMarkovChains
Utilities for Two-State Discrete-Time Markov Chains
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
R/MC_autocorr.R
R/MC_neff.R
R/auxiliary_functions.R
R/binary_multiESS.R
R/get_alpha_map.R
R/max_transitions_pmf.R
R/occupation_time_pmf.R
R/order_selection.r
R/performance_metrics.R
R/recurrence_time_pmf.R
R/stationarity.R
README.md
inst/extdata/ESS625/summary100
inst/extdata/ESS625/summary1000
inst/extdata/ESS625/summary200
inst/extdata/ESS625/summary30
inst/extdata/ESS625/summary630
inst/extdata/ESS625/testKappa.xml
inst/extdata/MCMCBasedSimulation/README
inst/extdata/MCMCBasedSimulation/bernoulli0.33/bits.xml
inst/extdata/MCMCBasedSimulation/bernoulli0.5/bits.xml
inst/extdata/MCMCBasedSimulation/bits.log
inst/extdata/MCMCBasedSimulation/bits.xml
inst/extdata/MCMCBasedSimulation/exponential/bits.xml
inst/extdata/MCMCBasedSimulation/uniform/bits.xml
inst/extdata/cladetraces/covid-bad-branchlengths.log.gz
inst/extdata/cladetraces/covid-focal.tgz
inst/extdata/cladetraces/covid-good-branchlengths.log.gz
inst/extdata/cladetraces/covid.tgz
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inst/extdata/cladetraces/mcmc/trace67.log
inst/extdata/cladetraces/mcmc/trace68.log
inst/extdata/cladetraces/mcmc/trace69.log
inst/extdata/cladetraces/mcmc/trace7.log
inst/extdata/cladetraces/mcmc/trace70.log
inst/extdata/cladetraces/mcmc/trace71.log
inst/extdata/cladetraces/mcmc/trace72.log
inst/extdata/cladetraces/mcmc/trace73.log
inst/extdata/cladetraces/mcmc/trace74.log
inst/extdata/cladetraces/mcmc/trace75.log
inst/extdata/cladetraces/mcmc/trace76.log
inst/extdata/cladetraces/mcmc/trace77.log
inst/extdata/cladetraces/mcmc/trace78.log
inst/extdata/cladetraces/mcmc/trace79.log
inst/extdata/cladetraces/mcmc/trace8.log
inst/extdata/cladetraces/mcmc/trace80.log
inst/extdata/cladetraces/mcmc/trace81.log
inst/extdata/cladetraces/mcmc/trace82.log
inst/extdata/cladetraces/mcmc/trace83.log
inst/extdata/cladetraces/mcmc/trace84.log
inst/extdata/cladetraces/mcmc/trace85.log
inst/extdata/cladetraces/mcmc/trace86.log
inst/extdata/cladetraces/mcmc/trace87.log
inst/extdata/cladetraces/mcmc/trace88.log
inst/extdata/cladetraces/mcmc/trace89.log
inst/extdata/cladetraces/mcmc/trace9.log
inst/extdata/cladetraces/mcmc/trace90.log
inst/extdata/cladetraces/mcmc/trace91.log
inst/extdata/cladetraces/mcmc/trace92.log
inst/extdata/cladetraces/mcmc/trace93.log
inst/extdata/cladetraces/mcmc/trace94.log
inst/extdata/cladetraces/mcmc/trace95.log
inst/extdata/cladetraces/mcmc/trace96.log
inst/extdata/cladetraces/mcmc/trace97.log
inst/extdata/cladetraces/mcmc/trace98.log
inst/extdata/cladetraces/mcmc/trace99.log
inst/extdata/cladetraces/ourisia-dep-1percent_clades.log
inst/extdata/cladetraces/ourisia-dep.log
inst/extdata/cladetraces/ourisia-indep-1percent_clades.log
inst/extdata/cladetraces/ourisia-indep.log
inst/extdata/cladetraces/xml30-dep-1percent_clades_thining10.log
inst/extdata/cladetraces/xml30-dep-1percent_clades_thining100.log
inst/extdata/cladetraces/xml30-dep.log
inst/extdata/cladetraces/xml30-indep.log
inst/extdata/cladetraces/yang-dep.log
inst/extdata/cladetraces/yang-indep.log
man/MC_autocorr.Rd
man/MC_neff.Rd
man/MC_neff_stable.Rd
man/MC_neff_theoretical.Rd
man/MC_neff_theoretical_stable.Rd
man/bin_corr.Rd
man/bin_cov.Rd
man/binary_corr_matrix.Rd
man/binary_cov_matrix.Rd
man/binary_multiESS.Rd
man/compute_Gsquared.Rd
man/compute_Hsquared.Rd
man/compute_order_BF.Rd
man/compute_stationarity_BF.Rd
man/estimate_alpha.Rd
man/find_k.Rd
man/form_Y.Rd
man/get_a.Rd
man/get_alpha_map.Rd
man/get_b.Rd
man/get_beta.Rd
man/get_contingency_array.Rd
man/get_maxK.Rd
man/get_max_alpha.Rd
man/joint_p.Rd
man/max_transitions_pmf.Rd
man/norm_matrix.Rd
man/occupation_time_pmf.Rd
man/recurrence_time_pmf.Rd
man/scaled_alpha.Rd
man/scaled_average_transitions.Rd
man/split_counts.Rd
man/split_phat.Rd
man/split_switching_ratio.Rd
man/switching_ratio.Rd
src/binarymc/BernoulliTrialGibbsOperator.java
src/binarymc/TSESS.java
src/binarymc/Test.java
src/binarymc/TwoStateESSApp.java
vignettes/Key_quantities.Rmd
vignettes/Key_quantities.html
