normflows — Peer-reviewed • Rank 17.4 • Science 100%

normflows: A PyTorch Package for Normalizing Flows - Published in JOSS (2023)

PyVBMC — Peer-reviewed • Rank 11.1 • Science 98%

PyVBMC: Efficient Bayesian inference in Python - Published in JOSS (2023)

pymc • Rank 28.8 • Science 77%

Bayesian Modeling and Probabilistic Programming in Python

LINFA — Peer-reviewed • Rank 9.1 • Science 95%

LINFA: a Python library for variational inference with normalizing flow and annealing - Published in JOSS (2024)

RxInfer — Peer-reviewed • Rank 13.6 • Science 77%

RxInfer: A Julia package for reactive real-time Bayesian inference - Published in JOSS (2023)

viabel • Rank 9.0 • Science 64%

Efficient, lightweight variational inference and approximation bounds

vaes • Rank 1.8 • Science 67%

Reproducible code showing the various types of variational autoencoders I have implemented

phylostan • Rank 6.7 • Science 59%

Phylogenetic inference using Stan

wiser.jl • Rank 1.4 • Science 62%

WISER: multimodal variational inference for full-waveform inversion without dimensionality reduction

ima-vae • Rank 4.2 • Science 54%

This is the code for the paper Embrace the Gap: VAEs perform Independent Mechanism Analysis, showing that optimizing the ELBO is equivalent to optimizing the IMA-regularized log-likelihood under certain assumptions (e.g., small decoder variance).

https://github.com/4ment/torchtree • Rank 7.0 • Science 46%

A probabilistic framework in PyTorch for phylogenetic models

https://github.com/cbg-ethz/scdef • Rank 7.8 • Science 36%

Deep exponential families for single-cell data.

https://github.com/4ment/physher • Rank 3.5 • Science 39%

A multi-algorithmic framework for phylogenetic inference

https://github.com/biaslab/nsi-silverbox • Rank 0.0 • Science 26%

Online system identification in Silverbox by minimising free energy

mixdir • Rank 8.7 • Science 10%

Cluster high dimensional categorical datasets

https://github.com/4ment/phylojax • Rank 0.7 • Science 13%

ReactiveMP • Science 67%

High-performance reactive message-passing based Bayesian inference engine

viprs • Science 44%

Variational Inference of Polygenic Risk Scores

https://github.com/aaltoml/boundary-gp • Science 10%

Know Your Boundaries: Constraining Gaussian Processes by Variational Harmonic Features

https://github.com/acerbilab/vbmc • Science 20%

Variational Bayesian Monte Carlo (VBMC) algorithm for posterior and model inference in MATLAB

https://github.com/aaltoml/improved-hyperparameter-learning • Science 10%

Codes for 'Improving Hyperparameter Learning under Approximate Inference in Gaussian Process Models' (ICML 2023)

NonparametricVI • Science 67%

Particle-based and nonparametric variational methods for approximate Bayesian inference and Probabilistic Programming

https://github.com/aaltoml/t-svgp • Science 10%

Codes for 'Dual Parameterization of Sparse Variational Gaussian Processes' (NeurIPS 2021)

https://github.com/aaltoml/spatio-temporal-gps • Science 23%

Code for NeurIPS 2021 paper 'Spatio-Temporal Variational Gaussian Processes'