White, S. A. and Herbei, R.
A Monte Carlo approach to quantifying discrepancies between intractable posterior distributions

Schneider, G., Craigmile, P. F. and Herbei, R.
Maximum likelihood estimation for stochastic differential equations using sequential kriging-based optimization
Submitted to Technometrics.


Kubatko, L., Shah, P., Herbei, R., Gilchrist, M. (2015)
A codon model of nucleotide substitution that includes the effects of selection related to codon usage and protein production rates.
Molecular Phylogenetics and Evolution Accepted.

Spade, D., Herbei, R., Kubatko, L. (2015)
Geometric ergodicity of a hybrid sampler for Bayesian inference of phylogenetic branch lengths.
Accepted for publication, Mathematical Biosciences.

White, S. A. and Herbei, R. (2015)
A Monte Carlo approach to quantifying model error Bayesian parameter estimation.
Computational Statistics and Data Analysis, 83, 168–181. Link.

Chen, N., Giannakis, D., Herbei, R., Majda, A. (2014)
An MCMC algorithm for parameter estimation for signals with hidden intermitent instability.
SIAM Journal of Uncertainty Quantification, 2, 647-669.

Herbei, R. and Berliner, M. (2014)
Estimating ocean circulation: an MCMC approach with approximated likelihoods via the Bernoulli factory.
Journal of the American Statistical Association, 109, p. 944-954. Link.

Spade, D., Herbei, R., Kubatko, L. (2014)
A Note on the Relaxation Time of Two Markov Chains on Rooted Phylogenetic Tree Spaces.
Statistics and Probability Letters, 84, p. 247-252 Link.

Milliff, R., Fiechter, J., Leeds, W., Herbei, R., Wikle, C., Hooten, M., Moore, A., Powell, T., Brown, J. (2013)
Uncertainty Management in Coupled Physical-Biological Lower-Trophic Level Ocean Ecosystem Models.
Oceanography 26(4), p. 98-115, Link

Wikle, C., Milliff, R., Herbei, R., Leeds, W. (2013)
Modern Statistical Methods in Oceanography: A Hierarchical Perspective
Statistical Science, 28, p. 466-486, Link.

Fiechter, J., Herbei, R., W. Leeds, Brown, J., Milliff, R., Wikle, C., Powel, T., Moore, A. (2013)
A Bayesian parameter estimation method applied to a marine ecosystem model for the coastal Gulf of Alaska.
Ecological Modelling. 258, p. 122-133. Link

Herbei, R. and Kubatko, L. (2013)
Monte Carlo estimation of total variation distance of Markov chains on large spaces, with application to phylogenetics
Statistical Applications to Genetics and Molecular Biology, 12, p. 39-48. Link

Flegal, J. and Herbei, R. (2012)
Exact sampling for intractable probability distributions via a Bernoulli factory.
Electronic Journal of Statistics, 6, 10-37. Link arXiv.

Herbei, R., Lyons, B., Laybourn-Parry, J., Gardner, C., Priscu, J., McKnight, D. (2010)
Physiochemical Properties Influencing Biomass Abundance and Primary Production in Lake Hoare, Antarctica.
Ecological Modelling, 221, p. 1184-1193. Link

Herbei, R., McKeague, I. W., (2009)
Geometric ergodicity of hybrid samplers for ill-posed inverse problems.
Scandinavian Journal of Statistics, 36, p. 839-853. Link

Herbei, R., (2009)
A Bayesian Approach to Inverse Problems: An Introductions with Examples.
The Annals of West University of Timisoara, 3, 67--82.

Herbei, R., McKeague, I. W., Speer, K. (2008)
Gyres and Jets: inversion of tracer data for ocean circulation structure.
J. Phys. Ocean., 38, p. 1180-1202. Link

Herbei, R., Wegkamp, M., (2006)
Classification with reject option.
Canadian Journal of Statistics, 34 pp. 709-721.

McKeague, I.W., Nicholls, G., Speer, K., Herbei, R. (2005).
Statistical inversion of South Atlantic circulation in an abyssal neutral density layer. J. Mar. Research, 63, 683-704.

Technical Reports

Beekman, C., Herbei, R., Calder, A. C. and Allen, C. H. Bayesian Inversion for Long-path Spectroscopic Data: Estimation of Vertical Profiles for Trace Gases in the Atmosphere