Weak baselines and reporting biases lead to overoptimism in machine learning for fluid-related partial differential equations

N McGreivy, A Hakim - Nature Machine Intelligence, 2024 - nature.com
One of the most promising applications of machine learning in computational physics is to
accelerate the solution of partial differential equations (PDEs). The key objective of machine …

R/qtl2: software for mapping quantitative trait loci with high-dimensional data and multiparent populations

KW Broman, DM Gatti, P Simecek, NA Furlotte… - Genetics, 2019 - academic.oup.com
R/qtl2 is an interactive software environment for mapping quantitative trait loci (QTL) in
experimental populations. The R/qtl2 software expands the scope of the widely-used R/qtl …

[HTML][HTML] Stan: A probabilistic programming language

B Carpenter, A Gelman, MD Hoffman… - Journal of statistical …, 2017 - ncbi.nlm.nih.gov
Stan is a probabilistic programming language for specifying statistical models. A Stan
program imperatively defines a log probability function over parameters conditioned on …

Compiler support for sparse tensor computations in MLIR

A Bik, P Koanantakool, T Shpeisman… - ACM Transactions on …, 2022 - dl.acm.org
Sparse tensors arise in problems in science, engineering, machine learning, and data
analytics. Programs that operate on such tensors can exploit sparsity to reduce storage …

Simulation-based Bayesian analysis

M Plummer - Annual Review of Statistics and Its Application, 2023 - annualreviews.org
I consider the development of Markov chain Monte Carlo (MCMC) methods, from late-1980s
Gibbs sampling to present-day gradient-based methods and piecewise-deterministic Markov …

PyPose: A library for robot learning with physics-based optimization

C Wang, D Gao, K Xu, J Geng, Y Hu… - Proceedings of the …, 2023 - openaccess.thecvf.com
Deep learning has had remarkable success in robotic perception, but its data-centric nature
suffers when it comes to generalizing to ever-changing environments. By contrast, physics …

SPIRAL: Extreme performance portability

F Franchetti, TM Low, DT Popovici… - Proceedings of the …, 2018 - ieeexplore.ieee.org
In this paper, we address the question of how to automatically map computational kernels to
highly efficient code for a wide range of computing platforms and establish the correctness of …

Affine body dynamics: Fast, stable & intersection-free simulation of stiff materials

L Lan, DM Kaufman, M Li, C Jiang, Y Yang - arXiv preprint arXiv …, 2022 - arxiv.org
Simulating stiff materials in applications where deformations are either not significant or can
safely be ignored is a pivotal task across fields. Rigid body modeling has thus long …

The Stan math library: Reverse-mode automatic differentiation in C++

B Carpenter, MD Hoffman, M Brubaker, D Lee… - arXiv preprint arXiv …, 2015 - arxiv.org
As computational challenges in optimization and statistical inference grow ever harder,
algorithms that utilize derivatives are becoming increasingly more important. The …

High-order differentiable autoencoder for nonlinear model reduction

S Shen, Y Yin, T Shao, H Wang, C Jiang, L Lan… - arXiv preprint arXiv …, 2021 - arxiv.org
This paper provides a new avenue for exploiting deep neural networks to improve physics-
based simulation. Specifically, we integrate the classic Lagrangian mechanics with a deep …