Programming

Math for biomedical modelling

Computational Fluid Dynamics

• Navier-Stokes benchmark; FreeFem code to validate and benchmark an unsteady NS solver.
• Dropipe; FreeFem code to validate pressure drop in CFD simulation.
• Cerebral Venous Network; [currently private] FreeFem, Python and Octave codes to pre-process raw data from medical acquisitions, simulate the venous blood flow and post-process results.
• 2D Bifurcation sandbox problem; [currently private] FreeFem and Octave of 2D vascular toy problem.
• Windkessel BC for FreeFEM .idp file to build implicit Windkessel BC matrices in FreeFEM.

Physiological modelling

• Flow rate manager; Octave module to process and resample flow rate acquisition.
• Center lines; [currently private] Octave module to load, display and manage center line from vessel networks.

Reduced Order Modelling

Reduced Basis Methods

• Proper Orthogonal Decomposition; FreeFEM version, Octave version, Python version modules to run POD on data sets, with test certification.
• Reduced Basis Suite; FreeFem code to manage RB items [WiP].
• Old Reduced Basis Code; FreeFem code to run Reduced Basis Method problems [depreciated].

Associated modules

• Empirical Interpolation Method; FreeFEM version; Octave version. code to perform EIM on data set.
• Parametrized-Background Data-Weak; [currently private] Octave module to run PBDW state estimations.

Numerical Analysis

• Radial Basis Function; Octave module to perform RBF interpolation with several kernel functions.
• Non-Parametric Estimation; [currently private].

Miscellaneous

• Extended Linear Algebra FreeFem; FreeFem code to perform standard LA operations between arrays and matrices.
• FF Matlib; FreeFem/Octave module to interface data structures. (forked project, original here).
• FF Python; FreeFem/Python code to interface data structures [WiP].
• Statistical Display Matlab; Matlab(c) code to display distributed data over several categories.
• Grid Manager; Octave/Matlab(c) codes to manage 2D grid in 3D environment. Useful step to provide in silico MRI measurements.
• Python Package template handy template to build Python package.