Simon Funke

X. Lai, H. A. Taskén, T. Mo, S. W. Funke, A. Frigessi, M. E. Rognes and A. Kohn-Luque

A scalable solver for a stochastic, hybrid cellular automaton model of personalized breast cancer therapy

International Journal for Numerical Methods in Biomedical Engineering

J. D. Trotter, X. Cai and S. W. Funke

On memory traffic and optimisations for low-order finite element assembly algorithms on multi-core CPUs

ACM Transactions on Mathematical Software

A. Elmokashfi, S. W. Funke, T. Klock, M. Kuchta, V. Naumova and J. J. Uv

Digital tracing, validation, and reporting

Smittestopp − A Case Study on Digital Contact Tracing

S. Mitusch, S. W. Funke and M. Kuchta

Hybrid FEM-NN models: Combining artificial neural networks with the finite element method

Journal of Computational Physics

J. S. Dokken, A. Johansson, A. Massing and S. W. Funke

A multimesh finite element method for the Navier–Stokes equations based on projection methods

Computer Methods in Applied Mechanics and Engineering

L. M. Valnes, S. Mitusch, G. Ringstad, P. K. Eide, S. W. Funke and K. Mardal

Apparent diffusion coefficient estimates based on 24 hours tracer movement support glymphatic transport in human cerebral cortex

Scientific Reports

J. S. Dokken, S. Mitusch and S. W. Funke

Automatic shape derivatives for transient PDEs in FEniCS and Firedrake

arxiv

S. Mitusch, S. W. Funke and M. Kuchta

Hybrid FEM-NN models: Combining artificial neural networks with the finite element method

Journal of Computational Physics

P. E. Farrell, J. E. Hake, S. W. Funke and M. E. Rognes

Automated adjoints of coupled PDE-ODE systems

SIAM Journal on Scientific Computing

J. S. Dokken, S. W. Funke, A. Johansson and S. Schmidt

Shape Optimization Using the Finite Element Method on Multiple Meshes with Nitsche Coupling

SIAM Journal on Scientific Computing

R. d. Feu, S. W. Funke, S. C. Kramer, D. M. Culley, J. Hill, B. S. Halpern and M. D. Piggott

The trade off between tidal-turbine array yield and environmental impact: a multi-objective optimisation problem

Renewable Energy

X. Lai, O. Geier, T. Fleischer, Ø. Garred, E. F. Borgen, S. W. Funke, S. Kumar, M. E. Rognes, T. Seierstad, A. Boerresen-Dale, V. N. Kristensen, O. Engebraaten, A. Kohn-Luque and A. Frigessi

Towards personalized computer simulation of breast cancer treatment: a multi-scale pharmacokinetic and pharmacodynamic model informed by multi-type patient data

Cancer Research

S. Mitusch, S. W. Funke and J. S. Dokken

dolfin-adjoint 2018.1: automated adjoints for FEniCS and Firedrake

Journal of Open Source Software

S. Mitusch and S. W. Funke

Algorithmic differentiation for coupled FEniCS and PyTorch models

S. W. Funke, J. S. Dokken and S. Mitusch

Algorithmic differentation for shape derivatives with PDE constraints

Berlin, Germany

J. S. Dokken

Algorithmic Differentiation for Shape Optimization Problems in the High Level Finite Element Framework FEniCS

SIAM Conference on Computational Science and Engineering (CSE19), Spokane, Washington, USA

J. D. Trotter, X. Cai, S. W. Funke and J. Langguth

Compiling finite element variational forms for GPU-based assembly

FEniCS‘19, Washington DC, USA

S. Mitusch, S. W. Funke and J. S. Dokken

Recent developments in dolfin-adjoint

FEniCS'19, Washington DC, USA

G. Balaban, H. Finsberg, S. W. Funke, T. F. Håland, E. Hopp, J. Sundnes, S. Wall and M. E. Rognes

In vivo estimation of elastic heterogeneity in an infarcted human heart

Biomechanics and Modeling in Mechanobiology

S. W. Funke, M. Nordaas, Ø. Evju, M. S. Alnæs and K. Mardal

Variational data assimilation for transient blood flow simulations

International Journal for Numerical Methods in Biomedical Engineering

J. S. Dokken

Towards Algorithmic Differentiation of shape optimization problems with time-dependent PDE-constraints

S. W. Funke

Automated adjoints for finite element models

EUCCO 2018, Trier, Germany

S. W. Funke

Ideas on how to combine machine learning with physical simulations

Oslo, Norway

S. W. Funke

MiniBiz: Can we combine machine learning and physical simulations?

StartupLab, Oslo, Norway

J. S. Dokken

Algorithmic Differentiation for Shape Optimization problems with overlapping meshes

Siam Annual Meeting, Portland, USA

S. W. Funke and S. Mitusch

Algorithmic differentiation for mixed FEniCS-Tensorflow models

Oxford, UK

N. Kukreja, J. Huckelheim, M. Lange, M. Louboutin, A. Walther, S. W. Funke and G. Gorman

High-level abstractions for optimal checkpointing in inversion problems

Bordeaux

D. Culley, S. W. Funke, S. Kramer and M. Piggott

A surrogate-model assisted approach for optimising the size of tidal turbine arrays

International Journal of Marine Energy

S. D. Parkinson, S. W. Funke, J. Hill, M. D. Piggott and P. A. Allison

Application of the adjoint approach to optimise the initial conditions of a turbidity current (AdjointTurbidity 1.0)

Geoscientic Model Development

M. Noack and S. W. Funke

Hybrid Genetic Deflated Newton Method for Global Optimisation

Journal of Computational and Applied Mathematics

S. W. Funke, P. E. Farrell and M. D. Piggott

Reconstructing wave profiles from inundation data

Computer Methods in Applied Mechanics and Engineering

R. d. Feu, S. W. Funke, S. Kramer, D. Culley, J. Hill, B. S. Halpern and M. Piggott

The trade-off between tidal-turbine array yield and impact on flow: A multi-objective optimisation problem

Renewable Energy

M. E. Rognes, P. E. Farrell, S. W. Funke, J. E. Hake and M. Maleckar

cbcbeat: an adjoint-enabled framework for computational cardiac electrophysiology

Journal of Open Source Software

T. Schwedes, D. A. Ham, S. W. Funke and M. D. Piggott

Mesh dependence in PDE-constrained optimisation

An Application in Tidal Turbine Array Layouts

J. S. Dokken, S. W. Funke, A. Johansson and S. Schmidt

Shape Optimization with Multiple Meshes

FEniCS Conference 2017

S. Mitusch and S. W. Funke

A new algorithmic differentiation tool (not only) for FEniCS

L. Nikitushkina, S. W. Funke, H. Finsberg, L. C. Lee and S. Wall

Sensitivity Analysis of Cardiac Growth Models

S. W. Funke

The Power of Python in Science and Education

Fysikermøtet 2017, Tromsø, Norway

S. W. Funke, J. S. Dokken, A. Johansson and S. Schmidt

Automatic Adjoints of Multimesh Finite Element Discretisations

Atlanta, USA

S. W. Funke

Machine learning with expert systems

Simula Research Laboratory, Norway

S. W. Funke, J. S. Dokken, A. Johansson and S. Schmidt

Optimization Problems in Dynamical Domains with Unfitted Meshes

X-DMS 2017, Umeå, Sweden

J. S. Dokken

Shape Optimization with Overlapping Meshes

ENUMATH 2017, Voss, Bergen

J. S. Dokken, S. W. Funke, A. Johansson and S. Schmidt

Shape Optimization with Multiple Meshes

FEniCS 2017 conference, Luxembourg

S. W. Funke, S. C. Kramer and M. D. Piggott

Design optimisation and resource assessment for tidal-stream renewable energy farms using a new continuous turbine approach

Renewable Energy

D. Culley, S. W. Funke, S. Kramer and M. D. Piggott

Integration of cost modelling within the micro-siting design optimisation of tidal turbine arrays

Renewable Energy

C. T. Jacobs, M. D. Piggott, S. C. Kramer and S. W. Funke

On the validity of tidal turbine array configurations obtained from steady-state adjoint optimisation

European Congress on Computational Methods in Applied Sciences and Engineering (ECCOMAS 2016)

S. W. Funke

Designing Tidal Turbine Arrays With PDE-constrained Optimisation

Pilsen, Czech Republic

S. W. Funke

Introduction to FEniCS and dolfin-adjoint

Symposium on the Application of Finite Elements in Physics and Engineering, University of South Africa, Johannesburg, South Africa

K. Mardal, S. W. Funke, M. Nordaas, Ø. Evju and M. S. Alnæs

Variational data assimilation for blood flow simulations

MS at SIAM UQ, Zurich

S. W. Funke

Designing Tidal Turbine Arrays With PDE-constrained Optimisation

ESCO 2016, Plzeň, Czech Republic

J. S. Dokken

Optimization Problems on Dynamical Domains with Non-Matching Meshes

29th Nordic Seminar on Computational mechanics

M. Noack and S. W. Funke

Apparatur and Method for Global Optimization

P. E. Farrell, A. Birkisson and S. W. Funke

Deflation Techniques for Finding Distinct Solutions of Nonlinear Partial Differential Equations

SIAM Journal on Scientific Computing

R. Venell, S. W. Funke, S. Draper, C. Stevens and T. Divett

Designing Large Arrays of Tidal Turbines: a Synthesis and Review

Renewable & Sustainable Energy Reviews

S. Rao, H. Xue, M. Bao and S. W. Funke

Determining Tidal Turbine Farm Efficiency in the Western Passage using the Disc Actuator Theory

Ocean Dynamics

S. C. Kramer, S. W. Funke and M. D. Piggott

A continuous approach for the optimisation of tidal turbine farms

European Wave and Tidal Energy Conference 2015

T. Roc, S. W. Funke and K. M. Thyng

Standard methodology for tidal array project optimisation: An idealized study of the Minas Passage

European Wave and Tidal Energy Conference 2015

D. M. Culley, S. W. Funke, S. C. Kramer and M. D. Piggott

Tidal stream resource assessment through optimisation of array design with quantification of uncertainty

European Wave and Tidal Energy Conference

S. W. Funke, P. E. Farrell, D. Ham and M. E. Rognes

Dolfin-adjoint, automated adjoint models for FEniCS

S. W. Funke, P. E. Farrell, D. A. Ham and M. E. Rognes

Dolfin-adjoint: Automatic adjoint models for FEniCS

The 8th International Congress on Industrial and Applied Mathematics

S. W. Funke and T. Roc

Optimizing tidal turbine farms with high-level tools

Texas A&M, USA

S. W. Funke

Assimilating 4D-MRI blood flow measurements using PDE-constrained optimisation

Oslo

S. W. Funke

Data assimilation in time-dependent blood flow simulations

Ankara

S. W. Funke

Data assimilation in time-dependent blood flow simulations

London, UK

S. W. Funke

Mesh-Independent Convergence for PDE-Constrained Optimisation Solvers in Dolfin-Adjoint

Salt Lake City, USA

P. E. Farrell, C. Cotter and S. W. Funke

A Framework for the Automation of Generalised Stability Theory

SIAM Journal on Scientific Computing

G. L. Barnett, S. W. Funke and M. D. Piggott

Hybrid Global-Local Optimisation Algorithms for the Layout Design of Tidal Turbine Arrays

Renewable Energy

S. W. Funke, P. E. Farrell and M. D. Piggott

Tidal Turbine Array Optimisation Using the Adjoint Approach

Renewable Energy

D. M. Culley, S. W. Funke, S. C. Kramer and M. D. Piggott

A Hierarchy of Approaches for the Optimal Design of Tidal Turbine Arrays

ICOE 2014 (5th International Conference on Ocean Energy)

T. Roc, K. Thyng and S. W. Funke

Benchmarking Tidal Array Optimization: a Balance Between Impacts & Economics of the Bay of Fundy

EWTEC 2015

D. M. Culley, S. W. Funke, S. Kramer and M. D. Piggott

Resource Assessment of Tidal Sites Through Array Optimisation of the Number of Turbines and the Micro-Siting Design

S. W. Funke

Lecture on PDE-constrained optimization with FEniCS

Zhjiang University, Hangzhou, China

S. W. Funke and M. Nordaas

PDE-Constrained Optimisation in Hilbert Spaces

FEniCS'14 workshop, Paris

P. E. Farrell, D. A. Ham, S. W. Funke and M. E. Rognes

Automated Derivation of the Adjoint of High-Level Transient Finite Element Programs

SIAM Journal on Scientific Computing

S. W. Funke, C. Pain, S. Kramer and M. D. Piggott

A wetting and drying algorithm with a combined pressure/free-surface formulation for non-hydrostatic models

Advances in Water Resources