sbi reloaded
sbi reloaded: a toolkit for simulation-based inference workflows - Published in JOSS (2025)
exoplanet
exoplanet: Gradient-based probabilistic inference for exoplanet data & other astronomical time series - Published in JOSS (2021)
PyAutoFit
PyAutoFit: A Classy Probabilistic Programming Language for Model Composition and Fitting - Published in JOSS (2021)
Generative DAGs as an Interface Into Probabilistic Programming with the R Package causact
Generative DAGs as an Interface Into Probabilistic Programming with the R Package causact - Published in JOSS (2022)
InvertibleNetworks.jl
InvertibleNetworks.jl: A Julia package for scalable normalizing flows - Published in JOSS (2024)
uravu
uravu: Making Bayesian modelling easy(er) - Published in JOSS (2020)
fmcmc
fmcmc: A friendly MCMC framework - Published in JOSS (2019)
statsExpressions
statsExpressions: R Package for Tidy Dataframes and Expressions with Statistical Details - Published in JOSS (2021)
PyVBMC
PyVBMC: Efficient Bayesian inference in Python - Published in JOSS (2023)
bayes-toolbox
bayes-toolbox: A Python package for Bayesian statistics - Published in JOSS (2023)
ParaMonte
ParaMonte: A high-performance serial/parallel Monte Carlo simulation library for C, C++, Fortran - Published in JOSS (2021)
nestcheck
nestcheck: error analysis, diagnostic tests and plots for nested sampling calculations - Published in JOSS (2018)
geostan
geostan: An R package for Bayesian spatial analysis - Published in JOSS (2022)
pocoMC
pocoMC: A Python package for accelerated Bayesian inference in astronomy and cosmology - Published in JOSS (2022)
ChainoPy
ChainoPy: A Python Library for Discrete Time Markov Chain Based Stochastic Analysis - Published in JOSS (2024)
GrainLearning
GrainLearning: A Bayesian uncertainty quantification toolbox for discrete and continuum numerical models of granular materials - Published in JOSS (2024)
BlackBIRDS
BlackBIRDS: Black-Box Inference foR Differentiable Simulators - Published in JOSS (2023)
approxposterior
approxposterior: Approximate Posterior Distributions in Python - Published in JOSS (2018)
SGMCMCJax
SGMCMCJax: a lightweight JAX library for stochastic gradient Markov chain Monte Carlo algorithms - Published in JOSS (2022)
Maelstrom
Maelstrom: A Python package for identifying companions to pulsating stars from their light travel time variations - Published in JOSS (2020)
Chi
Chi: A Python package for treatment response modelling - Published in JOSS (2024)
PyCurious
PyCurious: A Python module for computing the Curie depth from the magnetic anomaly. - Published in JOSS (2019)
PxMCMC
PxMCMC: A Python package for proximal Markov Chain Monte Carlo - Published in JOSS (2023)
perfectns
perfectns: perfect dynamic and standard nested sampling for spherically symmetric likelihoods and priors - Published in JOSS (2018)
IntrinsicTimescales.jl: A Julia package to estimate intrinsic (neural) timescales (INTs) from time-series data
IntrinsicTimescales.jl: A Julia package to estimate intrinsic (neural) timescales (INTs) from time-series data - Published in JOSS (2025)
Fitting a Gamma-Gompertz survival model to capture-recapture data collected on free-ranging animal populations
Fitting a Gamma-Gompertz survival model to capture-recapture data collected on free-ranging animal populations - Published in JOSS (2018)
GPJax
GPJax: A Gaussian Process Framework in JAX - Published in JOSS (2022)
RxInfer
RxInfer: A Julia package for reactive real-time Bayesian inference - Published in JOSS (2023)
genparticlefilters.jl
Building blocks for simple and advanced particle filtering in Gen.
dynesty
Dynamic Nested Sampling package for computing Bayesian posteriors and evidences
pigeons.jl
Sampling from intractable distributions, with support for distributed and parallel methods
anesthetic
anesthetic: nested sampling visualisation - Published in JOSS (2019)
calibr
Parallelized Bayesian calibration of simulations using Gaussian process emulation
prob-epi
Course materials of "Bayesian Modelling and Probabilistic Programming with Numpyro, and Deep Generative Surrogates for Epidemiology"
skbel
SKBEL - Bayesian Evidential Learning framework built on top of scikit-learn.
harmonic
Machine learning assisted marginal likelihood (Bayesian evidence) estimation for Bayesian model selection
brms
brms R package for Bayesian generalized multivariate non-linear multilevel models using Stan
storage-ring-gravitational-wave-observatory
Simulating the detection of millihertz (mHz) gravitational waves (GWs) from astrophysical sources by a Storage Ring Gravitational-wave Observatory (SRGO).
causalnex
A Python library that helps data scientists to infer causation rather than observing correlation.
DiffEqBayes
Extension functionality which uses Stan.jl, DynamicHMC.jl, and Turing.jl to estimate the parameters to differential equations and perform Bayesian probabilistic scientific machine learning
fgivenx
fgivenx: A Python package for functional posterior plotting - Published in JOSS (2018)
multilevelcoda
multilevelcoda R package for Bayesian multilevel compositional data analysis
https://github.com/pyro-ppl/numpyro
Probabilistic programming with NumPy powered by JAX for autograd and JIT compilation to GPU/TPU/CPU.
environmental-impact-assessment
performs Bayesian inference modeling to scope environmental impact assessments in sociotechnical energy systems
https://github.com/bilby-dev/bilby
A unified framework for stochastic sampling packages and gravitational-wave inference in Python.
bnlearn
Python package for Causal Discovery by learning the graphical structure of Bayesian networks. Structure Learning, Parameter Learning, Inferences, Sampling methods.
bdrc
Fits a discharge rating curve based on the power-law and the generalized power-law from data on paired water elevation and discharge measurements in a given river using a Bayesian hierarchical model as described in Hrafnkelsson et al. (2022)
https://github.com/biocore/birdman
Bayesian Inferential Regression for Differential Microbiome Analysis
bayesianreasoning
R package with functions to plot and help understand Positive and Negative Predictive Values, and their relationship with Sensitivity, Specificity and Prevalence.
https://github.com/juliagaussianprocesses/temporalgps.jl
Fast inference for Gaussian processes in problems involving time. Partly built on results from https://proceedings.mlr.press/v161/tebbutt21a.html
piranha
Scripts for file processing and analysis in phylogenetics and phylogeography
https://github.com/4ment/physher
A multi-algorithmic framework for phylogenetic inference
https://github.com/google-deepmind/pgmax
Loopy belief propagation for factor graphs on discrete variables in JAX
https://github.com/bayesflow-org/awesome-amortized-inference
This is a community-driven collection of resources around amortized inference.
Decision_Analysis_Course
🎓 Uni-Bonn Decision Analysis graduate course, lectures and materials
https://github.com/cbg-ethz/scicone
Single-cell copy number calling and event history reconstruction.
https://github.com/baggepinnen/lowlevelparticlefilters.jl
State estimation, smoothing and parameter estimation using Kalman and particle filters.
https://github.com/acerbilab/normalizing-flow-regression
Normalizing Flow Regression for Bayesian Inference with Offline Likelihood Evaluations
https://github.com/arviz-devs/posteriorstats.jl
Statistical analyses for Bayesian workflows
https://github.com/cdcgov/ww-inference-model
An in-development R package and a Bayesian hierarchical model jointly fitting multiple "local" wastewater data streams and "global" case count data to produce nowcasts and forecasts of both observations
CMF
R package for finding a joint low-rank representation for a collection of matrices with shared row or column entities.
bvartools
Functions for Bayesian inference of vector autoregressive and vector error correction models
https://github.com/ciela-institute/tarp
Coverage tests to check the quality of your posterior estimators.
https://github.com/daeh/emotionreasoning-cogsci22
Emotion Reasoning. Models, analyses and data for the 2022 CogSci paper, "Reasoning about the antecedents of emotions: Bayesian causal inference over an intuitive theory of mind"
lgpr
R-package for interpretable nonparametric modeling of longitudinal data using additive Gaussian processes. Contains functionality for inferring covariate effects and assessing covariate relevances. Various models can be specified using a convenient formula syntax.
https://github.com/adrn/princetonstatsseminar
Supplementary material for my lecture on 6 Feb.
https://github.com/biaslab/ccta2024-bidconvection
Experiments for CCTA 2024 submission on fast Bayesian gray-box identification of convection in heat transfer dynamics.
https://github.com/4ment/gradient-benchmark
automatic/analytical differentiation benchmark
labtoolbox
LabToolbox is a collection of tools for the analysis and processing of experimental data in scientific research.
bayes-sampler-comparison
A comparison investigation of water sampling methods using Bayesian inference modeling as part of a 2023 study by the CSU Agricultural Water Quality Program
fickleheart-method-tutorials
Code for the tutorials in the Fickle Heart model calibration with discrepancy 2020 paper.