doc/user/HOOMD.bib

   1 This file is automatically generated by update_bib.pl from a bibtex database managed by Joshua Anderson
   2 Please send him the doi of any reference you wish to add
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   8
   9 @article{Martyna1996,
  10 author = {Cao, J. and Martyna, G. J.},
  11 journal = {The Journal of Chemical Physics},
  12 number = {5},
  13 pages = {2028},
  14 title = {Adiabatic path integral molecular dynamics methods. II. Algorithms},
  15 volume = {104},
  16 year = {1996}
  17 }
  18 @article{LeBard2012,
  19 author = {LeBard, David N. and Levine, Benjamin G. and Mertmann, Philipp and Barr, Stephen A. and Jusufi, Arben and Sanders, Samantha and Klein, Michael L. and Panagiotopoulos, Athanassios Z.},
  20 journal = {Soft Matter},
  21 title = {Self-assembly of coarse-grained ionic surfactants accelerated by graphics processing units},
  22 volume = {8},
  23 year = {2012}
  24 }
  25 @article{Yu2010,
  26 author = {Yu, Tang-Qing and Alejandre, Jos\'{e} and L\'{o}pez-Rend\'{o}n, Roberto and Martyna, Glenn J. and Tuckerman, Mark E.},
  27 journal = {Chemical Physics},
  28 pages = {294--305},
  29 title = {Measure-preserving integrators for molecular dynamics in the isothermal–isobaric ensemble derived from the Liouville operator},
  30 volume = {370},
  31 year = {2010}
  32 }
  33 @article{Phillips2011,
  34 author = {Phillips, Carolyn L. and Anderson, Joshua A. and Glotzer, Sharon C.},
  35 journal = {Journal of Computational Physics},
  36 pages = {7191--7201},
  37 title = {Pseudo-random number generation for Brownian dynamics and dissipative particle dynamics simulations on GPU devices},
  38 volume = {230},
  39 year = {2011}
  40 }
  41 @article{Levine2011,
  42 author = {Levine, Benjamin G. and LeBard, David N. and DeVane, Russell and Shinoda, Wataru and Kohlmeyer, Axel and Klein, Michael L.},
  43 journal = {Journal of Chemical Theory and Computation},
  44 pages = {4135--4145},
  45 title = {Micellization studied by GPU-accelerated coarse-grained molecular dynamics},
  46 volume = {7},
  47 year = {2011}
  48 }
  49 @article{Berendsen1984,
  50 author = {Berendsen, H. J. C. and Postma, J. P. M. and van Gunsteren, W. F. and DiNola, A. and Haak, J. R.},
  51 journal = {The Journal of Chemical Physics},
  52 pages = {3684},
  53 title = {Molecular dynamics with coupling to an external bath},
  54 volume = {81},
  55 year = {1984}
  56 }
  57 @article{Plimpton1995,
  58 author = {Plimpton, Steve},
  59 journal = {J. Comp. Phys.},
  60 pages = {1--19},
  61 title = {Fast Parallel Algorithms for Short-Range Molecular Dynamics},
  62 volume = {117},
  63 year = {1995}
  64 }
  65 @article{Bond1999,
  66 author = {Bond, Stephen D and Leimkuhler, Benedict J and Laird, Brian B},
  67 journal = {Journal of Computational Physics},
  68 pages = {114--134},
  69 title = {The Nose-Poincare Method for Constant Temperature Molecular Dynamics},
  70 volume = {151},
  71 year = {1999}
  72 }
  73 @article{Kamberaj2005,
  74 author = {Kamberaj, H and Low, R J and Neal, M P},
  75 journal = {The Journal of chemical physics},
  76 pages = {224114},
  77 title = {Time reversible and symplectic integrators for molecular dynamics simulations of rigid molecules.},
  78 volume = {122},
  79 year = {2005}
  80 }
  81 @article{Martyna1994,
  82 author = {Martyna, Glenn J. and Tobias, Douglas J. and Klein, Michael L.},
  83 journal = {The Journal of Chemical Physics},
  84 number = {5},
  85 pages = {4177},
  86 title = {Constant pressure molecular dynamics algorithms},
  87 volume = {101},
  88 year = {1994}
  89 }
  90 @article{Nguyen2011,
  91 author = {Nguyen, Trung Dac and Phillips, Carolyn L. and Anderson, Joshua A. and Glotzer, Sharon C.},
  92 journal = {Computer Physics Communications},
  93 pages = {2307--2313},
  94 title = {Rigid body constraints realized in massively-parallel molecular dynamics on graphics processing units},
  95 volume = {182},
  96 year = {2011}
  97 }
  98 @article{Miller2002,
  99 author = {Miller, T. F. and Eleftheriou, M. and Pattnaik, P. and Ndirango, A. and Newns, D. and Martyna, G. J.},
 100 journal = {The Journal of Chemical Physics},
 101 pages = {8649},
 102 title = {Symplectic quaternion scheme for biophysical molecular dynamics},
 103 volume = {116},
 104 year = {2002}
 105 }
 106 @article{Morozov2011,
 107 author = {Morozov, I.V. and Kazennov, A.M. and Bystryi, R.G. and Norman, G.E. and Pisarev, V.V. and Stegailov, V.V.},
 108 journal = {Computer Physics Communications},
 109 pages = {1974--1978},
 110 title = {Molecular dynamics simulations of the relaxation processes in the condensed matter on GPUs},
 111 volume = {182},
 112 year = {2011}
 113 }
 114 @article{Tuckerman2006,
 115 author = {Tuckerman, Mark E and Alejandre, Jos\'{e} and L\'{o}pez-Rend\'{o}n, Roberto and Jochim, Andrea L and Martyna, Glenn J},
 116 journal = {Journal of Physics A: Mathematical and General},
 117 pages = {5629--5651},
 118 title = {A Liouville-operator derived measure-preserving integrator for molecular dynamics simulations in the isothermal–isobaric ensemble},
 119 volume = {39},
 120 year = {2006}
 121 }
 122 @article{Toxvaerd2011,
 123 author = {Toxvaerd, S\o ren and Dyre, Jeppe C},
 124 journal = {The Journal of chemical physics},
 125 pages = {081102},
 126 title = {Communication: Shifted forces in molecular dynamics.},
 127 volume = {134},
 128 year = {2011}
 129 }