MCMC
This toolbox provides tools to generate and analyse Metropolis-Hastings MCMC chain using multivariate Gaussian proposal distribution. The covariance matrix of the proposal distribution can be adapted during the simulation according to adaptive schemes described in the references. The code can do the following Produce MCMC chain for user written -2*log(likelihood) and -2*log(prior) functions. These will be equal to sum-of-squares functions when using Gaussian likelihood and prior. In case of Gaussian error model, sample the model error variance from the conjugate inverse chi squared distribution. Do plots and statistical analyses based on the chain, such as basic statistics, convergence diagnostics, chain timeseries plots, 2 dimensional clouds of points, kernel densities, and histograms. Calculate densities, cumulative distributions, quantiles, and random variates for some useful common statistical distributions without using Mathworks own statistics toolbox. The code is self consistent, no additional Matlab toolboxes are used. However, a quite recent version of Matlab is needed.
Keywords for this software
References in zbMATH (referenced in 6 articles )
Showing results 1 to 6 of 6.
Sorted by year (- Wentworth, Mami T.; Smith, Ralph C.; Williams, Brian: Bayesian model calibration and uncertainty quantification for an HIV model using adaptive Metropolis algorithms (2018)
- Bleyer, Ismael Rodrigo; Lybeck, Lasse; Auvinen, Harri; Airaksinen, Manu; Alku, Paavo; Siltanen, Samuli: Alternating minimisation for glottal inverse filtering (2017)
- Mesa, Mirtha Irizar; Tavares C^amara, Le^oncio D.; Campos-Knupp, Diego; da Silva Neto, Ant^onio JosÃ©: Uncertainty quantification in chromatography process identification based on Markov chain Monte Carlo (2016)
- Kumar, Kundan; Pisarenco, Maxim; Rudnaya, Maria; Savcenco, Valeriu: A note on analysis and numerics of algae growth (2014)
- Haario, Heikki; Kalachev, Leonid; Laine, Marko: Reduced models of algae growth (2009)
- Haario, Heikki; Saksman, Eero; Tamminen, Johanna: An adaptive Metropolis algorithm (2001)