Hierarchical statistical modeling software: Write models, MCMCs, particle filters, or other needs. Automatically compile them from R via code-generated C .
Joined May 2017
- Tweets 258
- Following 58
- Followers 866
- Likes 119
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Announcing nimble version 1.4.0 and new package nimbleQuad (1.4.0 to match nimble), both on CRAN (CRAN.R-project.org/package=n…, CRAN.R-project.org/package=n…). nimbleQuad provides Laplace approximation, adaptive Gauss-Hermite quadrature, and INLA-like posterior approximations.
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Announcing the new nimbleMacros package on CRAN, which provides more compact ways to specify linear model components or other model components in the nimble hierarchical modeling language. You can also write your own model macros. r-nimble.org/announcing-the-…
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New versions of nimble and nimbleHMC are available on CRAN. nimble now includes a Barker block sampler for MCMC, better implementations of Laplace approximation and adaptive Gauss-Hermite quadrature, and calling any user-provided optimization function. r-nimble.org/version-1-3-0-o…
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R-nimble retweeted
8 Oct 2024
🚨 The second article of my PhD is out 🥳 We integrated commute-time distance⚡ into dynamic occupancy models using @R_nimble to model carnivore recolonisation 🦦🐱. Curious why we're using hierarchical models for connectivity analyses? Check out the blog post!
Check out our latest blog post by @MaelisKervellec on tackling uncertainty in landscape connectivity! Discover more 👇 buff.ly/4eTxIBb
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We've updated nimbleEcology to use nimble's automatic differentiation features, allowing its occupancy, capture-recapture, HMM, and N-mixture models to work with HMC, Laplace approximation, and other AD algorithms. CRAN.R-project.org/package=n… @Ben_R_Goldstein
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Minor update to nimbleHMC, with No-U-turn Hamiltonian Monte Carlo samplers for nimble models: CRAN.R-project.org/package=n…. Version 0.2.2 includes better diagnostic checking for AD (automatic differentiation) support in any parts of a model to be sampled by HMC.
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nimble 1.2.0 is out! (details: r-nimble.org/version-1-2-0-o…). Includes adaptive Gauss-Hermite quadrature, better Laplace approx, Pólya-gamma sampler, noncentered sampler, revamped MCEM, new ways to provide your own distributions and functions with internal data, and some speedups.
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R-nimble retweeted
17 Jun 2024
Currently struggling with MCMC simulation analysis where some data sets require centered RE parameterization, other noncentered.
Nimble just added a new sampler that does both 🤯🤯
rdocumentation.org/packages/…
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21 May 2024
We spent such a great time talking about ecological modeling and Bayesian Inference with @R_nimble at @IREC_CSIC_UCLM #IBER24! 🗺️🦌📊🐬📉Thanks Pepe Jimenez for your talk and all attendees for coming, we hope to repeat it soon! Materials (🇪🇸) at jabiologo.github.io/web/tuto… #rstats
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R-nimble retweeted
17 May 2024
Running these analyses are bit complicated, and I rely a lot on the amazing @R_nimble package to build my models. But to make things more user-friendly I developed baorista, a dedicated R package that put the most complicated things in the backend
github.com/ercrema/baorista
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R-nimble retweeted
12 May 2024
Todo preparado para el taller sobre Inferencia Bayesiana en Ecología con R y @R_nimble! Tres días en el @IREC_CSIC_UCLM hablando sobre ecología y estadśitica 📊🦌📉🐰. Más info:
jabiologo.github.io/web/tuto… #dIBER #rstat #bayes @ValentinLauret Cheatsheet by @SoniaIllanas 😊
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R-nimble retweeted
16 Mar 2024
So we developed an alternative Bayesian approach, using the amazing @R_nimble R package. We come up with two solutions, a parametric approach based on the classic 's-shape' curve discussed in the literature and a more flexible non-parametric method.
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7 Mar 2024
NIMBLE, HMMs, GAMs for movement data, Bayesian MCMCs .. do not miss the fab workshopsvat #ISEC_2024 IN Swansea this July!
statisticalecology.org/?page…
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R-nimble retweeted
— ABSTRACT SUBMISSION OPEN —
The #ISEC2024 conference will showcase what’s cool and exciting in #statisticalecology.
Want to be part of it? 🤓☔️
You can now submit your abstract for talk or poster. Just follow the link on our website:
statisticalecology.org
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nimble version 1.1.0 is released on CRAN. Blog post: r-nimble.org/version-1-1-0-o…. Highlights: updates to automatic differentiation for more general Hamiltonian Monte Carlo and Laplace approximation. Addition of (1D) 'integrate' function.
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R-nimble retweeted
6 Oct 2023
10-14 June 2024 5-day workshop on "Modeling distribution, abundance, demography and population dynamics using R, JAGS and NIMBLE" at the Spanish Game Research Center (IREC) in Ciudad Real 🇪🇸
by M. Kéry M. Schaub @GGuillera @jj_lahoz M. Victoria Jiménez-Franco J. Jiménez 🤩
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We've released an updated version of Hamiltonian Monte Carlo (our implementation of the NUTS sampler) for nimble in package nimbleHMC (CRAN.R-project.org/package=n…). Among other things, it fixes an efficiency glitch in the initial release. r-nimble.org/nimblehmc-versi…
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R-nimble retweeted
18 Jul 2023
Once again amazed by the @R_nimble magic 🤩 I'm trying to fit dynamic ODE-based models to noisy data w/ Bayes and MCMC. Calling R functions within the code w/ nimbleRcall() is a game changer, as well as the possibility to change samplers.
oliviergimenez.github.io/fit…
#RStats
ALT figure showing abundance variation in hare/lynx
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R-nimble retweeted
10 Jul 2023
Excited to be running a workshop on Bayesian capture-recapture inference w hidden Markov models, #rstats & @R_nimble 🥳
Thanks for the invitation @vibass7 🥰
Website is up and running w slides, code & data oliviergimenez.github.io/bay…
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