Brad Carlin's Software Page


The programs on this page are associated with the published papers and research reports listed. You may also wish to visit the data/software pages for the Bayesian (Carlin and Louis) book, the spatial (Banerjee, Carlin and Gelfand) book, and the clinical trials (Berry, Carlin, Lee, and Muller) book, as well as Brad's teaching page and Sudipto Banerjee's software page for more information!

Also of potential interest is spBayes, a new R package for the analysis of point-level (geostatistical) spatial hierarchical models. The package currently handles normal observations in both univariate and multivariate settings; spatiotemporal and non-normal (e.g., logistic) models are on the way!


Murray, T.A., Hobbs, B.P., and Carlin, B.P. (2014), ``Combining nonexchangeable functional or survival data sources in oncology using generalized mixture commensurate priors." Research Report 2014--003, Division of Biostatistics, University of Minnesota, 2014. Under revision for the Annals of Applied Statistics.

These programs were written by Mr. Tom Murray during 2014.

Murray, T.A., Hobbs, B.P., Sargent, D.J., and Carlin, B.P. (2014), ``Flexible Bayesian survival modeling with nonparametric time-dependent and shape-restricted covariate effects." Research Report 2014--007, Division of Biostatistics, University of Minnesota, 2014. Submitted to Bayesian Analysis.

These programs were written by Mr. Tom Murray during 2014.

Murray, T.A., Hobbs, B.P., Lystig, T.C., and Carlin, B.P. (2013), ``Semiparametric Bayesian commensurate survival model for post-market medical device surveillance with non-exchangeable historical data," with associated web supplement. Research Report 2013--004, Division of Biostatistics, University of Minnesota, 2013. Biometrics, 70, 185--191.

These programs were written by Mr. Tom Murray during 2013.

Quick, H., Banerjee, S. and Carlin, B.P. (2013), ``Modeling temporal gradients in regionally aggregated California asthma hospitalization data," with associated web supplement. Annals of Applied Statistics,7, 154--176, 2013.

These programs were written by Mr. Harrison Quick during 2012.

Zhang, J., Carlin, B.P., Neaton, J.D., Soon, G.G., Nie, L., Kane, R.L., Virnig, B.A., and Chu, H. (2012), ``Towards patient-centered network meta-analysis of randomized clinical trials with binary outcomes: Reporting the proper summaries," to appear Clinical Trials.

These programs were written by Ms. Jing Zhang during 2013.

Murray, T.A., Carlin, B.P., and Lystig, T.C. (2012), ``Bayesian adaptive design for device surveillance," Clinical Trials, 10, 5--18.

These programs were written by Mr. Tom Murray during 2012.

Hobbs, B.P., Sargent, D.J., and Carlin, B.P. (2012), ``Commensurate priors for incorporating historical information in clinical trials using general and generalized linear models," Bayesian Analysis, 7, 639--674.

These programs were written by Mr. Brian Hobbs during 2012. The reader may also wish to consult the Commensurate Priors Software Page at MD Anderson for even more sophisticated, web-driven commensurate prior software. Note: This site also handles the case of time-to-event data!

Hong, H., Chu, H., Shamliyan, T.A., Wang, S., Kane, R.L., and Carlin, B.P. (2012), ``Bayesian missing data approaches for multiple treatment comparisons of continuous multiple outcomes with application to knee pain secondary to osteoarthritis," AHRQ methods report, to be submittted.

These programs were written by Ms. Hwanhee Hong during 2012.

Hatfield, L.A., Boye, M.E., Hackshaw, M.D., and Carlin, B.P. (2012), ``Multilevel Bayesian models for survival times and longitudinal patient-reported outcomes with many zeros," to appear J. Amer. Statist. Assoc.

These programs were written by Dr. Laura Hatfield during 2009-11.

Zhong, W., Carlin, B.P., and Koopmeiners, J.S. (2011), ``Flexible link continual reassessment methods for trivariate binary outcome phase I/II trials," Research Report 2011--031, Division of Biostatistics, University of Minnesota. Submitted to the Journal of Statistical Theory and Practice.

These programs were written by Mr. Wei Zhong during 2011.

Renfro, L.A., Shi, Q., Sargent, D.J., and Carlin, B.P. (2010), ``Bayesian adjusted $R^2$ for the meta-analytic evaluation of surrogate time-to-event endpoints in clinical trials," Research Report 2010--006, Division of Biostatistics, University of Minnesota. To appear Statistics in Medicine.

These programs were written by Ms. Lindsay Renfro during 2009-10.

Hobbs, B.P., Carlin, B.P., Mandrekar, S., and Sargent, D.J. (2009), ``Hierarchical commensurate prior models for adaptive incorporation of historical information in clinical trials," Research Report 2009--017, Division of Biostatistics, University of Minnesota.

These programs were written by Mr. Brian Hobbs during 2009-10

Zhao, L., Hanson, T., and Carlin, B.P. (2007), ``Mixtures of Polya trees for flexible spatial frailty survival modeling," Research Report 2006--018, Division of Biostatistics, University of Minnesota.

Note that all downloads are currently set up to be saved in a directory named F:/PostOnWeb/. These programs were written by Ms. Luping Zhao during 2006-7 for Bayesian MPT model estimation, prediction, and frailty mapping.

Hobbs, B.P. and Carlin, B.P. (2007), ``Practical Bayesian design and analysis for drug and device clinical trials," Research Report 2007--003, Division of Biostatistics, University of Minnesota.

These programs were written to perform fully Bayesian design (i.e., to do sample size calculations) for both drug and medical device clinical trials using a binomial (alive/dead) response model, as well as for both parametric (Weibull) and nonparametric (Cox) proportional hazards survival models.

Liang, S., Banerjee, S., Bushhouse, S., Finley, A. and Carlin, B.P. (2006), ``Hierarchical multiresolution approaches for dense point-level breast cancer treatment data," Research Report 2006--012, Division of Biostatistics, University of Minnesota.

These programs were written by Mr. Shengde Liang during 2006 to perform multiscale hierarchical modeling of very large geostatistical (point level) datasets.

Ma, H. and Carlin, B.P. (2006), ``Bayesian multivariate areal wombling for multiple disease boundary analysis," to appear Bayesian Analysis.

These programs were written by Ms. Haijun Ma, 12/22/06, to perform multivariate areal smoothing and boundary analysis (wombling). Both file should be opened in WinBUGS 1.4.

He, Y., Hodges, J.S., and Carlin, B.P. (2006), Reconsidering the variance parameterization in multiple precision models," to appear Bayesian Analysis.

These programs were written by Yi He during 2006, and edited by James Hodges.

Ma, H., Carlin, B.P., and Banerjee, S. (2006), ``Hierarchical and joint site-edge methods for Medicare hospice service region boundary analysis," Research Report 2006--010, Division of Biostatistics, University of Minnesota.

These programs were written by Ms. Haijun Ma, 5/24/06, to perform areal smoothing and boundary analysis (wombling) for arbitrary areal maps (including those created from .shp files, using ArcView 8.x or earlier)

Ma, H., Virnig, B., and Carlin, B.P. (2005), ``Spatial methods in geographic administrative data analysis," Italian Journal of Public Health, 3, 94-104.

These programs were written by Ms. Haijun Ma, 8/15/05, to perform areal smoothing and boundary analysis (wombling) for the Minnesota county map. The approach uses WinBUGS 1.4, followed by R.

Lu, H., Reilly, C.S., Banerjee, S., and Carlin, B.P. (2007), ``Bayesian areal wombling via adjacency modeling," to appear Environmental and Ecological Statistics.


Lu, H. and Carlin, B.P. (2005), ``Bayesian areal wombling for geographical boundary analysis," Geographical Analysis, 37, 265--285.


Lu, H., Hodges, J., and Carlin, B.P. (2006), ``Measuring the complexity of generalized linear hierarchical models," to appear Canadian Journal of Statistics.


Jin, X., Carlin, B.P., and Banerjee, S. (2005), ``Generalized Hierarchical Multivariate CAR Models for Areal Data," Biometrics, 61, 950--961.


Jin, X. and Carlin, B.P. (2005), ``Multivariate parametric spatiotemporal models for county level breast cancer survival data,'' Lifetime Data Analysis, 11, 5--27.


Guo, X. and Carlin, B.P. (2004), ``Separate and Joint Modeling of Longitudinal and Event Time Data Using Standard Computer Packages," The American Statistician, 58, 16--24.


Short, M., Carlin, B.P., and Bushhouse, S. (2002), ``Using hierarchical spatial models for cancer control planning in Minnesota (United States),'' Cancer Causes and Control, 13, 903--916.


Finally, here are some programs for performing spatial frailty analysis in the GeoBUGS software package:


Back to Brad Carlin's home page

Brad Carlin (brad*at*biostat*dot*umn*dot*edu)