Provides functions for summarizing and plotting the output from Markov Chain Monte Carlo (MCMC) simulations, as well as diagnostic tests of convergence to the equilibrium distribution of the Markov chain.
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0.19-4 by Martyn Plummer, 6 months ago
Browse source code at https://github.com/cran/coda
Authors: Martyn Plummer [aut, cre, trl] , Nicky Best [aut] , Kate Cowles [aut] , Karen Vines [aut] , Deepayan Sarkar [aut] , Douglas Bates [aut] , Russell Almond [aut] , Arni Magnusson [aut]
Documentation: PDF Manual
Task views: Bayesian Inference, gRaphical Models in R
GPL (>= 2) license
Imports lattice
Imported by AHMbook, BAMBI, BANOVA, BCHM, BDWreg, BEST, BGVAR, BNPdensity, BNPmix, BNSP, BPEC, BRugs, BTSPAS, BTYDplus, BaBooN, BayesBinMix, BayesComm, BayesFM, BayesGWQS, BayesLN, BayesMFSurv, BayesMassBal, BayesPostEst, BayesRS, BayesSPsurv, BayesX, BayesianTools, Bayesrel, Bchron, Bergm, BiProbitPartial, CARBayes, CARBayesST, CircSpaceTime, DAMisc, DeLorean, DrBats, EcoDiet, EpiEstim, EvidenceSynthesis, HLSM, IFP, IRATER, IceCast, JMbayes2, JointAI, LAWBL, LDATS, MCMCvis, MPTmultiverse, MRH, MSGARCH, MetaLandSim, MethComp, MfUSampler, MixSIAR, MplusAutomation, NMADiagT, NestedCategBayesImpute, NobBS, PLMIX, POUMM, PVAClone, R2MLwiN, R2OpenBUGS, R2admb, R2jags, RMark, RPANDA, RcmdrPlugin.RMTCJags, RoBMA, SAVE, SeqFeatR, SimBIID, TBSSurvival, TreeBUGS, UPG, Zelig, agRee, altmeta, apTreeshape, apollo, arm, auRoc, bamp, bayesGARCH, bayesLife, bayesTFR, bayesbr, bayescount, bayesmix, bayesvl, bcgam, bdpopt, bfw, bgsmtr, bgumbel, bite, blapsr, blavaan, bmscstan, bnma, bpcs, bridgesampling, brms, broom.mixed, bsam, bssm, btergm, bvartools, causact, circglmbayes, conting, ctmcd, dcmle, deBInfer, diagis, dmbc, eggCounts, eiCompare, eiPack, emdbook, ergm, ergm.ego, evolqg, evolvability, ewoc, fabMix, factor.switching, fdasrvf, fmcmc, geiger, geoBayes, ggdmc, greta, hSDM, hdpGLM, hierarchicalDS, hmi, immer, ivdoctr, jSDM, jagsUI, krige, latentnet, lcra, list, llbayesireg, lvmcomp, marked, mcmcOutput, mcmcr, mcp, mdmb, metaBMA, miWQS, missingHE, mixAK, morse, motmot, multibridge, multimark, multinomineq, nLTT, networkTomography, nimble, nlist, nse, optimalThreshold, ouxy, pcnetmeta, phytools, plotMCMC, pmwg, polySegratioMM, pomp, postpack, ptycho, qrjoint, r4ss, ratematrix, rbacon, redist, ref.ICAR, rjmcmc, rplum, rr, rtmpt, runjags, rwty, scape, seeds, shinyrecap, shrinkTVP, slfm, sns, spBayes, spBayesSurv, spTDyn, spTimer, sparsereg, spatialreg, spdep, spikeSlabGAM, sspse, statnet.common, stocc, stochvol, superdiag, tRophicPosition, telefit, tergm, tidybayes, trialr, tuts, vICC, walker, wiqid, wv, zic.
Depended on by AdjBQR, ArchaeoChron, ArchaeoPhases, BAYSTAR, BMAmevt, BayLum, BayesARIMAX, BayesBEKK, BayesFactor, BayesLCA, BayesSAE, BayesTwin, DPP, EpiILM, EpiILMCT, FME, HelpersMG, Hmsc, HybridMC, ICBayes, ISEtools, InSilicoVA, MBSP, MCMC.OTU, MCMC.qpcr, MCMCglmm, MCMCpack, MCMCtreeR, MasterBayes, R2WinBUGS, Rlda, RxCEcolInf, TESS, Ultimixt, adaptMCMC, adaptsmoFMRI, anominate, bamlss, bayesDccGarch, bayesSurv, bayespref, bhm, bhpm, bkmrhat, blatent, bmk, boral, bsem, c212, coalescentMCMC, codadiags, cplm, cubfits, dclone, endorse, gconsensus, gemtc, gfiExtremes, hzar, iFad, icenReg, lira, mcgibbsit, mcmcplots, mcsm, metropolis, ocomposition, pexm, phase1PRMD, phase1RMD, popReconstruct, prevalence, ramps, relevent, rjags, robustsae, siar, spNNGP, spsurv, zoib.
Suggested by AdMit, AnaCoDa, BBMV, BGGE, BVAR, BaM, BayHaz, DiffusionRgqd, DiffusionRimp, DiffusionRjgqd, HDInterval, LAM, LNIRT, Luminescence, R2BayesX, SALTSampler, SIBER, TAM, TransPhylo, airGR, amen, bayesImageS, bayesanova, bayest, bcp, bnormnlr, broom, embryogrowth, emmeans, ergmito, factorstochvol, gap, ggmcmc, glmmTMB, glmmfields, icensBKL, ltbayes, mcmcderive, mcmcensemble, mcmcsae, miceadds, modelbased, nmathresh, noisyCE2, outbreaker2, polyfreqs, pscl, rFIA, rater, rbi, season, see, shinystan, sirt, spBFA, spCP, surveillance, systemicrisk, texreg, womblR, zoo.
See at CRAN