Articles by Chris Paciorek

Version 0.10.0 of NIMBLE released

October 14, 2020 | Chris Paciorek

We’ve released the newest version of NIMBLE on CRAN and on our website. NIMBLE is a system for building and sharing analysis methods for statistical models, especially for hierarchical models and computationally-intensive methods (such as MCMC and SMC). Version 0.10.0 provides new features, improvements in speed of building models and ...

New NIMBLE cheatsheat available

June 14, 2020 | Chris Paciorek

We have prepared a cheatsheet that summarizes NIMBLE’s functionality and syntax in a two-page format that follows the RStudio collection of cheatsheets. NIMBLE is a system for building and sharing analysis methods for statistical models, especially for hierarchical models and computationally-intensive methods (such as MCMC and SMC). Please see ...

Version 0.9.1 of NIMBLE released

May 27, 2020 | Chris Paciorek

We’ve released the newest version of NIMBLE on CRAN and on our website. NIMBLE is a system for building and sharing analysis methods for statistical models, especially for hierarchical models and computationally-intensive methods (such as MCMC and SMC). Version 0.9.1 is primarily a bug fix release but also provides some ...

nimbleEcology: custom NIMBLE distributions for ecologists

April 18, 2020 | Chris Paciorek

Prepared by Ben Goldstein. What is nimbleEcology? nimbleEcology is an auxiliary nimble package for ecologists. nimbleEcology contains a set of distributions corresponding to some common ecological models. When the package is loaded, these distributions are registered to NIMBLE and can be used directly in models. nimbleEcology contains distributions often used ...

registration open for online NIMBLE short course, June 3-5, 2020

April 6, 2020 | Chris Paciorek

Registration is now open for a three-day online training workshop on NIMBLE, June 3-5, 2020, 9 am – 2 pm California time (noon – 5 pm US EDT). This online workshop will be held in place of our previously planned in-person workshop. NIMBLE is a system for building and sharing analysis methods for statistical models, […]

registration open for NIMBLE short course, June 3-4, 2020 at UC Berkeley

March 2, 2020 | Chris Paciorek

Registration is now open for a two-day training workshop on NIMBLE, June 3-4, 2020 in Berkeley, California. NIMBLE is a system for building and sharing analysis methods for statistical models, especially for hierarchical models and computationally-intensive methods (such as MCMC and SMC). The workshop will cover: the basic concepts and workflows ...

NIMBLE short course at March ENAR meeting in Nashville

January 4, 2020 | Chris Paciorek

We’ll be holding a half-day short course on NIMBLE on March 22 at the ENAR meeting in Nashville, Tennessee. The annual ENAR meeting is a major biostatistics conference, sponsored by the eastern North American region of the International Biometric Society. The short course will focus on usage of NIMBLE in ...

Variable selection in NIMBLE using reversible jump MCMC

January 2, 2020 | Chris Paciorek

Prepared by Sally Paganin. Reversible Jump MCMC Overview Reversible Jump MCMC (RJMCMC) is a general framework for MCMC simulation in which the dimension of the parameter space (i.e., the number of parameters) can vary between iterations of the Markov chain. It can be viewed as an extension of the ...

Version 0.9.0 of NIMBLE released

December 21, 2019 | Chris Paciorek

We’ve released the newest version of NIMBLE on CRAN and on our website. NIMBLE is a system for building and sharing analysis methods for statistical models, especially for hierarchical models and computationally-intensive methods (such as MCMC and SMC). Version 0.9.0 provides some new features as well as providing a variety ...

New NIMBLE code examples

December 19, 2019 | Chris Paciorek

We’ve posted a variety of new code examples for NIMBLE at https://r-nimble.org/examples. These include some introductory code for getting started with NIMBLE, as well as examples of setting up specific kinds of models such as GLMMs, spatial models, item-response theory models, and a variety of models ...

NIMBLE short course, June 3-4, 2020 at UC Berkeley

December 11, 2019 | Chris Paciorek

We’ll be holding a two-day training workshop on NIMBLE, June 3-4, 2020 in Berkeley, California. NIMBLE is a system for building and sharing analysis methods for statistical models, especially for hierarchical models and computationally-intensive methods (such as MCMC and SMC). The tutorial will cover the basic concepts and workflows for ...

NIMBLE short course at Bayes Comp 2020 conference

September 13, 2019 | Chris Paciorek

We’ll be giving a short course on NIMBLE on January 7, 2020 at the Bayes Comp 2020 conference being held January 7-10 in Gainesville, Florida, USA. Bayes Comp is a popular biennial ISBA-sponsored conference focused on computational methods/algorithms/technologies for Bayesian inference. The short course focuses on programming algorithms in NIMBLE ...

Version 0.8.0 of NIMBLE released

June 7, 2019 | Chris Paciorek

We’ve released the newest version of NIMBLE on CRAN and on our website. NIMBLE is a system for building and sharing analysis methods for statistical models, especially for hierarchical models and computationally-intensive methods (such as MCMC and SMC). Version 0.8.0 provides some new features, speed improvements, and a variety of ...

Version 0.7.1 of NIMBLE released

March 15, 2019 | Chris Paciorek

We’ve released the newest version of NIMBLE on CRAN and on our website. NIMBLE is a system for building and sharing analysis methods for statistical models, especially for hierarchical models and computationally-intensive methods (such as MCMC and SMC). Version 0.7.1 is primarily a maintenance release with a couple important bug ...

Version 0.7.0 of NIMBLE released

February 5, 2019 | Chris Paciorek

We’ve released the newest version of NIMBLE on CRAN and on our website. NIMBLE is a system for building and sharing analysis methods for statistical models, especially for hierarchical models and computationally-intensive methods (such as MCMC and SMC). Version 0.7.0 provides a variety of new features, as well as various ...

Bayesian Nonparametric Models in NIMBLE, Part 2: Nonparametric Random Effects

December 6, 2018 | Chris Paciorek

Bayesian nonparametrics in NIMBLE: Nonparametric random effects Overview NIMBLE is a hierarchical modeling package that uses nearly the same language for model specification as the popular MCMC packages WinBUGS, OpenBUGS and JAGS, while making the modeling language extensible — you can add distributions and functions — and also allowing customization of the ... [Read more...]

Bayesian Nonparametric Models in NIMBLE, Part 1: Density Estimation

December 4, 2018 | Chris Paciorek

Bayesian Nonparametric Models in NIMBLE, Part 1: Density Estimation Bayesian nonparametrics in NIMBLE: Density estimation Overview NIMBLE is a hierarchical modeling package that uses nearly the same language for model specification as the popular MCMC packages WinBUGS, OpenBUGS and JAGS, while making the modeling language extensible — you can add distributions and ... [Read more...]

Version 0.6-12 of NIMBLE released

July 29, 2018 | Chris Paciorek

We’ve released the newest version of NIMBLE on CRAN and on our website. Version 0.6-12 is primarily a maintenance release with various bug fixes. Changes include: a fix for the bootstrap particle filter to correctly calculate weights when particles are not resampled (the filter had been omitting the previous ...

Version 0.6-11 of NIMBLE released

June 16, 2018 | Chris Paciorek

We’ve released the newest version of NIMBLE on CRAN and on our website. Version 0.6-11 has important new features, notably support for Bayesian nonparametric mixture modeling, and more are on the way in the next few months. New features include: support for Bayesian nonparametric mixture modeling using Dirichlet process ...

Two day workshop: Flexible programming of MCMC and other methods for hierarchical and Bayesian models

April 19, 2018 | Chris Paciorek

We’ll be giving a two day workshop at the 43rd Annual Summer Institute of Applied Statistics at Brigham Young University (BYU) in Utah, June 19-20, 2018. Abstract is below, and registration and logistics information can be found here. This workshop provides a hands-on introduction to using, programming, and sharing Bayesian ...

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