-
2
-
-
33645961739
-
A smooth particle mesh Ewald method
-
Essmann U., Perera L., Berkowitz M.L., Darden T., Lee H., and Pederson L. A smooth particle mesh Ewald method. J. Chem. Phys. 103 (1995) 8577-8593
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 8577-8593
-
-
Essmann, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.4
Lee, H.5
Pederson, L.6
-
3
-
-
28144464582
-
Multilevel matrix multiplication and fast solution of integral equations
-
Brandt A., and Lubrecht A.A. Multilevel matrix multiplication and fast solution of integral equations. J. Comput. Phys. 90 (1990) 348-370
-
(1990)
J. Comput. Phys.
, vol.90
, pp. 348-370
-
-
Brandt, A.1
Lubrecht, A.A.2
-
4
-
-
0037197257
-
Multiple grid methods for classical molecular dynamics
-
Skeel R.D., Tezcan I., and Hardy D.J. Multiple grid methods for classical molecular dynamics. J. Comput. Chem. 23 6 (2002) 673-684
-
(2002)
J. Comput. Chem.
, vol.23
, Issue.6
, pp. 673-684
-
-
Skeel, R.D.1
Tezcan, I.2
Hardy, D.J.3
-
5
-
-
85190784862
-
-
D. J. Hardy, Multilevel summation for the fast evaluation of forces for the simulation of biomolecules, Ph.D. Thesis, University of Illinois at Urbana-Champaign, also Department of Computer Science Report No. UIUCDCS-R-2006-2546, May 2006. Available online at http://www.cs.uiuc.edu/research/techreports.php?year=2006.
-
-
-
-
6
-
-
0035339718
-
Multiscale fast summation of long range charge and dipolar interactions
-
Sandak B. Multiscale fast summation of long range charge and dipolar interactions. J. Comput. Chem. 22 7 (2001) 717-731
-
(2001)
J. Comput. Chem.
, vol.22
, Issue.7
, pp. 717-731
-
-
Sandak, B.1
-
7
-
-
0000396658
-
A fast algorithm for particle simulations
-
Greengard L., and Rokhlin V. A fast algorithm for particle simulations. J. Comput. Phys. 73 (1987) 325-348
-
(1987)
J. Comput. Phys.
, vol.73
, pp. 325-348
-
-
Greengard, L.1
Rokhlin, V.2
-
8
-
-
0000316648
-
Difficulties with multiple timestepping and the fast multipole algorithm in molecular dynamics
-
Bishop T., Skeel R.D., and Schulten K. Difficulties with multiple timestepping and the fast multipole algorithm in molecular dynamics. J. Comput. Chem. 18 14 (1997) 1785-1791
-
(1997)
J. Comput. Chem.
, vol.18
, Issue.14
, pp. 1785-1791
-
-
Bishop, T.1
Skeel, R.D.2
Schulten, K.3
-
9
-
-
0030172529
-
3M, FMM, and the Ewald method for large periodic Coulombic systems
-
3M, FMM, and the Ewald method for large periodic Coulombic systems. Comput. Phys. Commun. 95 2 and 3 (1996) 93-110
-
(1996)
Comput. Phys. Commun.
, vol.95
, Issue.2-3
, pp. 93-110
-
-
Pollock, E.L.1
Glosli, J.2
-
10
-
-
22244433235
-
How to mesh up Ewald sums. I. A theoretical and numerical comparison of various particle mesh routines
-
Deserno M., and Holm C. How to mesh up Ewald sums. I. A theoretical and numerical comparison of various particle mesh routines. J. Chem. Phys. 109 18 (1998) 7678-7693
-
(1998)
J. Chem. Phys.
, vol.109
, Issue.18
, pp. 7678-7693
-
-
Deserno, M.1
Holm, C.2
-
11
-
-
0034506266
-
Efficient particle-mesh Ewald based approach to fixed and induced dipolar interactions
-
Toukmaji A., Sagui C., Board J., and Darden T. Efficient particle-mesh Ewald based approach to fixed and induced dipolar interactions. J. Chem. Phys. 113 24 (2000) 10913-10927
-
(2000)
J. Chem. Phys.
, vol.113
, Issue.24
, pp. 10913-10927
-
-
Toukmaji, A.1
Sagui, C.2
Board, J.3
Darden, T.4
-
12
-
-
85190817969
-
-
W. Wang, Fast polarizable force field computation in biomolecular simulations, Ph.D. Thesis, University of Illinois at Urbana-Champaign, also Department of Computer Science Report No. UIUCDCS-R-2005-2522, 2005. Available online at http://www.cs.uiuc.edu/research/techreports.php?year=2005.
-
-
-
-
13
-
-
27344436659
-
Scalable molecular dynamics with NAMD
-
Phillips J.C., Braun R., Wang W., Gumbart J., Tajkhorshid E., Villa E., Chipot C., Skeel R.D., Kalé L., and Schulten K. Scalable molecular dynamics with NAMD. J. Comput. Chem. 26 16 (2005) 1781-1802
-
(2005)
J. Comput. Chem.
, vol.26
, Issue.16
, pp. 1781-1802
-
-
Phillips, J.C.1
Braun, R.2
Wang, W.3
Gumbart, J.4
Tajkhorshid, E.5
Villa, E.6
Chipot, C.7
Skeel, R.D.8
Kalé, L.9
Schulten, K.10
-
14
-
-
84986440341
-
SETTLE: An analytical version of the SHAKE and RATTLE algorithm for rigid water molecules
-
Miyamoto S., and Kollman P.A. SETTLE: An analytical version of the SHAKE and RATTLE algorithm for rigid water molecules. J. Comput. Chem. 13 8 (1992) 952-962
-
(1992)
J. Comput. Chem.
, vol.13
, Issue.8
, pp. 952-962
-
-
Miyamoto, S.1
Kollman, P.A.2
-
15
-
-
18144377695
-
Monitoring energy drift with shadow Hamiltonians
-
Engle R.D., Skeel R.D., and Drees M. Monitoring energy drift with shadow Hamiltonians. J. Comput. Phys. 206 2 (2005) 432-452
-
(2005)
J. Comput. Phys.
, vol.206
, Issue.2
, pp. 432-452
-
-
Engle, R.D.1
Skeel, R.D.2
Drees, M.3
-
16
-
-
33646940952
-
Numerical integration of the cartesian equation of motion of a system with constraints: molecular dynamics of n-alkanes
-
Ryckaert J., Ciccotti G., and Berendsen H. Numerical integration of the cartesian equation of motion of a system with constraints: molecular dynamics of n-alkanes. J. Comput. Phys. 23 (1977) 327-341
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 327-341
-
-
Ryckaert, J.1
Ciccotti, G.2
Berendsen, H.3
-
17
-
-
33646650705
-
Reversible multiple time scale molecular dynamics
-
Tuckerman M., Berne B.J., and Martyna G.J. Reversible multiple time scale molecular dynamics. J. Chem. Phys. 97 3 (1992) 1990-2001
-
(1992)
J. Chem. Phys.
, vol.97
, Issue.3
, pp. 1990-2001
-
-
Tuckerman, M.1
Berne, B.J.2
Martyna, G.J.3
-
18
-
-
84963146276
-
Generalized Verlet algorithm for efficient molecular dynamics simulations with long-range interactions
-
Grubmüller H., Heller H., Windemuth A., and Schulten K. Generalized Verlet algorithm for efficient molecular dynamics simulations with long-range interactions. Mol. Simul. 6 (1991) 121-142
-
(1991)
Mol. Simul.
, vol.6
, pp. 121-142
-
-
Grubmüller, H.1
Heller, H.2
Windemuth, A.3
Schulten, K.4
-
19
-
-
85190791564
-
-
http://www.ks.uiuc.edu/Research/namd/.
-
-
-
|