TY - JOUR
T1 - Precise calculation of the local pressure tensor in Cartesian and spherical coordinates in LAMMPS
AU - Nakamura, Takenobu
AU - Kawamoto, Shuhei
AU - Shinoda, Wataru
N1 - Publisher Copyright:
© 2014 Elsevier B.V. All rights reserved.
PY - 2015/5/1
Y1 - 2015/5/1
N2 - An accurate and efficient algorithm for calculating the 3D pressure field has been developed and implemented in the open-source molecular dynamics package, LAMMPS. Additionally, an algorithm to compute the pressure profile along the radial direction in spherical coordinates has also been implemented. The latter is particularly useful for systems showing a spherical symmetry such as micelles and vesicles. These methods yield precise pressure fields based on the Irving-Kirkwood contour integration and are particularly useful for biomolecular force fields. The present methods are applied to several systems including a buckled membrane and a vesicle.
AB - An accurate and efficient algorithm for calculating the 3D pressure field has been developed and implemented in the open-source molecular dynamics package, LAMMPS. Additionally, an algorithm to compute the pressure profile along the radial direction in spherical coordinates has also been implemented. The latter is particularly useful for systems showing a spherical symmetry such as micelles and vesicles. These methods yield precise pressure fields based on the Irving-Kirkwood contour integration and are particularly useful for biomolecular force fields. The present methods are applied to several systems including a buckled membrane and a vesicle.
KW - Irving-Kirkwood contour
KW - Molecular dynamics
KW - Pressure field
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U2 - 10.1016/j.cpc.2014.11.017
DO - 10.1016/j.cpc.2014.11.017
M3 - Article
AN - SCOPUS:84924618914
SN - 0010-4655
VL - 190
SP - 120
EP - 128
JO - Computer Physics Communications
JF - Computer Physics Communications
ER -