TY - JOUR
T1 - CRIMSON
T2 - An open-source software framework for cardiovascular integrated modelling and simulation
AU - Arthurs, Christopher J.
AU - Khlebnikov, Rostislav
AU - Melville, Alex
AU - Marčan, Marija
AU - Gomez, Alberto
AU - Dillon-Murphy, Desmond
AU - Cuomo, Federica
AU - Vieira, Miguel Silva
AU - Schollenberger, Jonas
AU - Lynch, Sabrina R.
AU - Tossas-Betancourt, Christopher
AU - Iyer, Kritika
AU - Hopper, Sara
AU - Livingston, Elizabeth
AU - Youssefi, Pouya
AU - Noorani, Alia
AU - Ahmed, Sabrina Ben
AU - Nauta, Foeke J.H.
AU - van Bakel, Theodorus M.J.
AU - Ahmed, Yunus
AU - van Bakel, Petrus A.J.
AU - Mynard, Jonathan
AU - Di Achille, Paolo
AU - Gharahi, Hamid
AU - Lau, Kevin D.
AU - Filonova, Vasilina
AU - Aguirre, Miquel
AU - Nama, Nitesh
AU - Xiao, Nan
AU - Baek, Seungik
AU - Garikipati, Krishna
AU - Sahni, Onkar
AU - Nordsletten, David
AU - Alberto Figueroa, C.
N1 - Publisher Copyright:
Copyright: © 2021 Arthurs et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
PY - 2021/5
Y1 - 2021/5
N2 - In this work, we describe the CRIMSON (CardiovasculaR Integrated Modelling and SimulatiON) software environment. CRIMSON provides a powerful, customizable and user-friendly system for performing three-dimensional and reduced-order computational haemodynamics studies via a pipeline which involves: 1) segmenting vascular structures from medical images; 2) constructing analytic arterial and venous geometric models; 3) performing finite element mesh generation; 4) designing, and 5) applying boundary conditions; 6) running incompressible Navier-Stokes simulations of blood flow with fluid-structure interaction capabilities; and 7) post-processing and visualizing the results, including velocity, pressure and wall shear stress fields. A key aim of CRIMSON is to create a software environment that makes powerful computational haemodynamics tools accessible to a wide audience, including clinicians and students, both within our research laboratories and throughout the community. The overall philosophy is to leverage best-in-class open source standards for medical image processing, parallel flow computation, geometric solid modelling, data assimilation, and mesh generation. It is actively used by researchers in Europe, North and South America, Asia, and Australia. It has been applied to numerous clinical problems; we illustrate applications of CRIMSON to real-world problems using examples ranging from preoperative surgical planning to medical device design optimization.
AB - In this work, we describe the CRIMSON (CardiovasculaR Integrated Modelling and SimulatiON) software environment. CRIMSON provides a powerful, customizable and user-friendly system for performing three-dimensional and reduced-order computational haemodynamics studies via a pipeline which involves: 1) segmenting vascular structures from medical images; 2) constructing analytic arterial and venous geometric models; 3) performing finite element mesh generation; 4) designing, and 5) applying boundary conditions; 6) running incompressible Navier-Stokes simulations of blood flow with fluid-structure interaction capabilities; and 7) post-processing and visualizing the results, including velocity, pressure and wall shear stress fields. A key aim of CRIMSON is to create a software environment that makes powerful computational haemodynamics tools accessible to a wide audience, including clinicians and students, both within our research laboratories and throughout the community. The overall philosophy is to leverage best-in-class open source standards for medical image processing, parallel flow computation, geometric solid modelling, data assimilation, and mesh generation. It is actively used by researchers in Europe, North and South America, Asia, and Australia. It has been applied to numerous clinical problems; we illustrate applications of CRIMSON to real-world problems using examples ranging from preoperative surgical planning to medical device design optimization.
UR - https://www.scopus.com/pages/publications/85106060879
U2 - 10.1371/journal.pcbi.1008881
DO - 10.1371/journal.pcbi.1008881
M3 - Article
C2 - 33970900
AN - SCOPUS:85106060879
SN - 1553-734X
VL - 17
JO - PLoS Computational Biology
JF - PLoS Computational Biology
IS - 5
M1 - e1008881
ER -