[HTML][HTML] Gryffin: An algorithm for Bayesian optimization of categorical variables informed by expert knowledge

F Häse, M Aldeghi, RJ Hickman, LM Roch… - Applied Physics …, 2021 - pubs.aip.org
Designing functional molecules and advanced materials requires complex design choices:
tuning continuous process parameters such as temperatures or flow rates, while …

GAUCHE: a library for Gaussian processes in chemistry

RR Griffiths, L Klarner, H Moss… - Advances in …, 2024 - proceedings.neurips.cc
We introduce GAUCHE, an open-source library for GAUssian processes in CHEmistry.
Gaussian processes have long been a cornerstone of probabilistic machine learning …

High-dimensional Bayesian optimisation with variational autoencoders and deep metric learning

A Grosnit, R Tutunov, AM Maraval, RR Griffiths… - arXiv preprint arXiv …, 2021 - arxiv.org
We introduce a method combining variational autoencoders (VAEs) and deep metric
learning to perform Bayesian optimisation (BO) over high-dimensional and structured input …

Are random decompositions all we need in high dimensional Bayesian optimisation?

JK Ziomek, HB Ammar - International Conference on …, 2023 - proceedings.mlr.press
Learning decompositions of expensive-to-evaluate black-box functions promises to scale
Bayesian optimisation (BO) to high-dimensional problems. However, the success of these …

Bayesian optimisation for additive screening and yield improvements–beyond one-hot encoding

B Ranković, RR Griffiths, HB Moss, P Schwaller - Digital Discovery, 2024 - pubs.rsc.org
Reaction additives are critical in dictating the outcomes of chemical processes making their
effective screening vital for research. Conventional high-throughput experimentation tools …

Antbo: Towards real-world automated antibody design with combinatorial bayesian optimisation

A Khan, AI Cowen-Rivers, A Grosnit, DGX Deik… - arXiv preprint arXiv …, 2022 - arxiv.org
Antibodies are canonically Y-shaped multimeric proteins capable of highly specific
molecular recognition. The CDRH3 region located at the tip of variable chains of an antibody …

Achieving robustness to aleatoric uncertainty with heteroscedastic Bayesian optimisation

RR Griffiths, AA Aldrick, M Garcia-Ortegon… - Machine Learning …, 2021 - iopscience.iop.org
Bayesian optimisation is a sample-efficient search methodology that holds great promise for
accelerating drug and materials discovery programs. A frequently-overlooked modelling …

Modeling the multiwavelength variability of Mrk 335 using Gaussian processes

RR Griffiths, J Jiang, DJK Buisson… - The Astrophysical …, 2021 - iopscience.iop.org
The optical and UV variability of the majority of active galactic nuclei may be related to the
reprocessing of rapidly changing X-ray emission from a more compact region near the …

Data-driven discovery of molecular photoswitches with multioutput Gaussian processes

RR Griffiths, JL Greenfield, AR Thawani… - Chemical …, 2022 - pubs.rsc.org
Photoswitchable molecules display two or more isomeric forms that may be accessed using
light. Separating the electronic absorption bands of these isomers is key to selectively …

Framework and benchmarks for combinatorial and mixed-variable Bayesian optimization

K Dreczkowski, A Grosnit… - Advances in Neural …, 2024 - proceedings.neurips.cc
This paper introduces a modular framework for Mixed-variable and Combinatorial Bayesian
Optimization (MCBO) to address the lack of systematic benchmarking and standardized …