• Packmol

  • Referenced in 15 articles [sw13408]
  • dynamics simulations. Adequate initial configurations for molecular dynamics simulations consist of arrangements of molecules distributed ... packing problem: Each type molecule must satisfy spatial constraints related to the geometry ... molecule may also be restricted to different spatial regions, in such a way that more ... time for state-of-the-art molecular dynamics systems varies from a few seconds...
  • CWENO

  • Referenced in 26 articles [sw01051]
  • able to efficiently capture strong gradients on spatial scales being small compared to the overall ... world problems’ using the example of the dynamics of a Sedov-type explosion...
  • TexMol

  • Referenced in 5 articles [sw13086]
  • higher-level spatial comprehension. Our hierarchical, image based rendering also allows dynamically computed physical properties...
  • WONDY

  • Referenced in 8 articles [sw08720]
  • Lagrangian equations of motion in one spatial dimension (planar, cylindrical, or spherical). Simulations of explosive ... detonation, energy deposition, plate impact, and dynamic fracture are possible, using a variety of existing...
  • incompact3d

  • Referenced in 31 articles [sw06223]
  • using high performance computing, and computational fluid dynamics is now a credible alternative to experiments ... investigate turbulence, featuring the highest temporal and spatial accuracy and it requires extraordinary powerful resources...
  • DTHB3D_Reg

  • Referenced in 5 articles [sw40372]
  • Dynamic Truncated Hierarchical B-spline based 3D Image Registration). The optimum spatial transformation, defined using ... grayscale images. Control points are dynamically updated without constructing large matrices as in finite element...
  • RAMSES

  • Referenced in 41 articles [sw18064]
  • structure formation in the universe with high spatial resolution. The code is based on Adaptive ... using various test cases, from pure gas dynamical tests to cosmological ones. The specific refinement...
  • UDAM

  • Referenced in 7 articles [sw09063]
  • nonlinear and suction-dependent behaviour. Spatial discretization of the field equations carried ... finite element method and the dynamic integration in time domain are described, as well...
  • GASpAR

  • Referenced in 12 articles [sw18141]
  • synthesized into a new formulation of dynamic adaptive refinement (DARe) of non-conforming h-type ... codes. Quantitative errors are reported for 2D spatial and temporal convergence of DARe...
  • nsCouette

  • Referenced in 1 article [sw32576]
  • based on a pseudospectral spatial discretization and dynamic time-stepping. It is implemented in modern...
  • PARSEC

  • Referenced in 20 articles [sw22333]
  • approach is used for the calculation of spatial derivatives. Owing to the sparsity ... confined. Structural relaxation. Simulated annealing. Langevin molecular dynamics. Polarizability calculations (confined-system boundary conditions only...
  • Laghos

  • Referenced in 5 articles [sw34681]
  • dynamics in a moving Lagrangian frame using unstructured high-order finite element spatial discretization...
  • pyunicorn

  • Referenced in 8 articles [sw19314]
  • theory such as measures and models for spatial networks, networks of interacting networks, node-weighted ... Additionally, pyunicorn provides insights into the nonlinear dynamics of complex systems as recorded...
  • BacSim

  • Referenced in 22 articles [sw17261]
  • bacterial colony growth. The generic, quantitative, spatially explicit, individual-based model BacSim was developed ... extension of Gecko, an ecosystem dynamics model which uses the Swarm toolkit for multi-agent ... random variation of cell parameters or spatial heterogeneity. Variation of the maximal uptake rate completely...
  • SPREAD

  • Referenced in 1 article [sw21020]
  • SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics. SUMMARY: SPREAD is a user-friendly, cross-platform ... analyze and visualize Bayesian phylogeographic reconstructions incorporating spatial-temporal diffusion. The software maps phylogenies annotated...
  • wildlifeDI

  • Referenced in 1 article [sw27385]
  • Interaction for Wildlife Telemetry Data. Dynamic interaction refers to spatial-temporal associations in the movements ... suite of indices used for quantifying dynamic interaction with wildlife telemetry data. For more information...
  • QUALIMUWABA

  • Referenced in 5 articles [sw18130]
  • zonal flow influence on drift-waves dynamics. Cross-validation test performed between the three codes ... show good agreement on both temporal and spatial characteristics of unstable modes in the linear...
  • CYLGYR

  • Referenced in 5 articles [sw18131]
  • zonal flow influence on drift-waves dynamics. Cross-validation test performed between the three codes ... show good agreement on both temporal and spatial characteristics of unstable modes in the linear...
  • NAMD2

  • Referenced in 21 articles [sw09642]
  • Greater scalability for parallel molecular dynamics. Molecular dynamics programs simulate the behavior of biomolecular systems ... provide these desirable features. It uses spatial decomposition combined with force decomposition to enhance scalability...
  • LUCAS

  • Referenced in 4 articles [sw15644]
  • dynamics described by a set of nonlinear ordinary differential equations with a cellular automaton spatial...