Biomedical Engineering Reference
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Fig. 10.4 The velocity field for the particulate fluid in the region of the endothelium. The extent of
the ESL is indicated by the broken line . An enhanced recirculation region is induced by the porous
media ( bottom ), with respect to an experiment without glycocalyx ( top ). The single deformable
drop has been acted on by encountering the glycocalyx body force field. The flow appears to be
deflected up which would tend to protect the endothelial cell surface from increased WSS
10.6 The MUPHY Software
The simulation of real-life blood flows involves five basic steps: (1) acquisition of
MDCT data, (2) data segmentation into a stack of slices, (3) mesh generation from
the segmented slices, (4) flow simulation; (5) data analysis and visualization. The
MUPHY simulation package is designed to handle generic geometries, such as
those provided by the MDCT acquisitions, and to run large-scale simulations on
commodity or high-performance hardware resources. The major advantage of
MUPHY is the possibility of concurrently simulating fluid dynamics together
with suspended bodies at cellular and molecular scales. This multi-scale methodol-
ogy arises from the combined use of LB and molecular dynamics techniques and
has been discussed in previous sections and in paper [ 3 ].
In the design of MUPHY, we have followed some basic guidelines that allow us
to use the software as is, for a number of diverse applications. The cornerstone of
our approach is to use an indirect addressing scheme [ 11 , 37 ]. At variance with most
Navier-Stokes solvers, the LB mesh is Cartesian, providing extreme simplicity in
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