• Dryad

  • Referenced in 20 articles [sw08916]
  • general-purpose distributed execution engine for coarse-grain data-parallel applications. A Dryad application combines...
  • ESPResSo

  • Referenced in 17 articles [sw06335]
  • Molecular Dynamics many-particle simulations of ”coarse-grained” bead-spring models as they are used...
  • NFsim

  • Referenced in 11 articles [sw22256]
  • advanced and flexible options for simulating coarse-grained representations of complex nonlinear reaction mechanisms ... Emonet T. Efficient modeling, simulation and coarse-graining of biological complexity with NFsim. Nature Methods...
  • FoCaLiZe

  • Referenced in 10 articles [sw12384]
  • refine a development from the coarse-grain specification to the fully defined executable program...
  • STMBench7

  • Referenced in 9 articles [sw08814]
  • more scalable than explicit coarse-grained locking and easier to use than fine-grained locking...
  • REACH

  • Referenced in 6 articles [sw00788]
  • program package for residue-scale coarse-grained biomolecular simulation. The program calculates the force constants ... atomistic simulation results onto a coarse-grained force field in an efficient automated procedure without...
  • HiFlow3

  • Referenced in 8 articles [sw06354]
  • systems – is introduced on two levels: coarse-grained parallelism by means of distributed grids...
  • simpA

  • Referenced in 7 articles [sw00863]
  • context is to devise higher-level, coarse-grained abstractions that would help building concurrent programs...
  • Parkway

  • Referenced in 7 articles [sw12863]
  • partitioning tool. We recently proposed a coarse-grained parallel multilevel algorithm...
  • SELM

  • Referenced in 3 articles [sw17574]
  • Fluctuating hydrodynamics methods for dynamic coarse-grained implicit-solvent simulations in LAMMPS. We introduce ... dynamic thermostats to extend implicit-solvent coarse-grained (IS-CG) models by incorporating kinetic contributions ... Lagrangian method (SELM). SELM couples the coarse-grained microstructure degrees of freedom to continuum stochastic...
  • SPINAL

  • Referenced in 5 articles [sw08319]
  • phases. In the first coarse-grained alignment phase we construct all pairwise initial similarity scores...
  • FlowDroid

  • Referenced in 5 articles [sw26741]
  • Android use a number of coarse-grain approximations that can yield high numbers of missed...
  • iMod

  • Referenced in 4 articles [sw35118]
  • proposed framework operates at different coarse-grained levels and offers an efficient framework to conduct...
  • Ibisco

  • Referenced in 2 articles [sw14733]
  • molecular dynamics simulation package for coarse-grained simulation. BIsCO is a parallel molecular dynamics simulation ... package developed specially for coarse-grained simulations with numerical potentials derived by the iterative Boltzmann ... loss of degrees of freedom by coarse-graining. The reverse nonequilibrium molecular dynamics simulation method...
  • Cgaln

  • Referenced in 2 articles [sw22989]
  • RESULTS: We previously proposed the CGAT (Coarse-Grained AlignmenT) algorithm, which performs an alignment ... nucleotide level. The former is ”coarse-grained” alignment that can explore genomic rearrangements and reduce...
  • MAVEN

  • Referenced in 2 articles [sw35124]
  • atomic coordinates or by employing various coarse-graining procedures. Visualization can be performed either with ... computational speed of the coarse-grained ENMs. Analysis options are available to further...
  • ENCoM

  • Referenced in 2 articles [sw16880]
  • function and stability. ENCoM is a coarse-grained normal mode analysis method recently introduced that ... apply for the first time a coarse-grained normal mode analysis method to predict...
  • ESPResSo++

  • Referenced in 3 articles [sw30328]
  • scientific simulation and analysis of coarse-grained atomistic or bead-spring models as they...
  • DynTile

  • Referenced in 3 articles [sw09639]
  • enhancing data locality and exploiting coarse-grained parallelism. Tiled codes in which tile sizes...
  • MOVE

  • Referenced in 3 articles [sw02550]
  • large-scale base ontology. We utilize coarse-grained data-level parallelism inherent in the problem...