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This repository includes the simulation and figure generation code for Burke et al., Phys. Rev. B 109, 045138 (2024) [arXiv:2302.10982], [doi:10.1103/PhysRevB.109.045138]

Library for performing multiphase simulations (based on the Shan-Chen model) in complicated geometries (i.e. porous media 3D images)

Differentiable and GPU-accelerated area-based registration methods using Fast Fourier Transform (FFT).

PlantEye and Linear Axis codes

Tools to support working with ParaView

Repo to hold ansible-files that shall be used for automatic creation/configuration of hosts (e.g. gitlab-runners)

Laplacian Cortex Traverses

Support library for common computations in fusion.

Scripts for MEG analysis steps for sharing and editing.

Example idp installation via ansible

Source code and data corresponding to the publication 'Reliability and subject specificity of personalized whole-brain dynamical models'

Source code corresponding to the manuscript "Parcellation-induced variation of empirical and simulated brain connectomes at group and subject levels"