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BVPy: A FEniCS-based Python package to ease the expression and study of boundary value problems in Biology.

Authors: Florian, Gacon; Christophe, Godin; Olivier, Ali;

BVPy: A FEniCS-based Python package to ease the expression and study of boundary value problems in Biology.

Abstract

BVPy is a python library to easily implement and study numerically Boundary Value Problems (BVPs) and Initial Boundary Value Problems (IBVPs) through the Finite Element Method (FEM). BVPy proposes an intuitive Application Programming Interface (API) to harness and combine the core functionalities of three powerful libraries: FEniCS provides the core data structures and solving algorithms; Gmsh defines the domains and their meshing; and Meshio handles data reading and writing. Initially built in the context of developmental biology and morphomechanics, its purpose is to enable all users, even with little to none experience in FEM, to quickly and efficiently estimate the behavior of a wide variety of fields (scalars, vectors, tensors) on biologically relevant structures, inspired by biophysical and biochemical processes (morphogene patterning, active matter mechanics, active transports...). Despite this biological motivation, the BVPy library has been implemented in an agnostic manner that makes it suitable for many other scientific context.

Keywords

Boundary Value Problem, Computational Biology, FEniCS, Finite Elements

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selected citations
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This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
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