• SGNS2

  • Referenced in 2 articles [sw34966]
  • SGNS2: a compartmentalized stochastic chemical kinetics simulator for dynamic cell populations. Motivation: Cell growth ... processes and the phenotype diversity of cell populations. Since the effects are complex, e.g. different ... chemical reaction systems according to the Stochastic Simulation Algorithm with multi-delayed reactions within hierarchical...
  • Compartor

  • Referenced in 1 article [sw41452]
  • automatic generation of moment equations for dynamic compartment populations. Many biochemical processes in living organisms ... work, we have shown how the stochastic dynamics of a compartmentalized biochemical system ... technique, the time evolution of a compartment population is summarized using a finite number ... equation method, Compartor renders the analysis of stochastic population models accessible to a broader scientific...
  • FluTE

  • Referenced in 10 articles [sw31627]
  • stochastic model of the spread of influenza across a large population. Individuals in this model ... model can be used to study the dynamics of influenza epidemics in the United States...
  • hybridModels

  • Referenced in 2 articles [sw33830]
  • Networks. Simulates stochastic hybrid models for transmission of infectious diseases in dynamic networks ... population and disease spreads within nodes and among them, combining two approaches: stochastic simulation algorithm...
  • VORTEX

  • Referenced in 3 articles [sw19436]
  • demographic, environmental and genetic stochastic events on wildlife populations. It can model many ... threaten persistence of small populations. Vortex models population dynamics as discrete, sequential events that occur...
  • Biosimware

  • Referenced in 1 article [sw01324]
  • processes to population phenomena. BioSimWare implements several stochastic algorithms to simulate the dynamics of single...
  • ppsim

  • Referenced in 2 articles [sw38637]
  • dynamics involves picking a uniform random pair from a population of n molecules to collide ... Penschuck, and Tran [ESA 2020] discovered a population protocol simulation algorithm quadratically faster than ... constant* time, while preserving the *exact* stochastic dynamics. ppsim implements this algorithm, with a tightly ... billions of reactions in seconds. It dynamically switches to the CRN Gillespie algorithm for efficiency...
  • SimBiology

  • Referenced in 2 articles [sw21896]
  • SimBiology uses ordinary differential equations (ODEs) and stochastic solvers to simulate the time course profile ... metabolite levels. You can investigate system dynamics and guide experimentation using parameter sweeps and sensitivity ... also use single subject or population data to estimate model parameters...
  • SimInf

  • Referenced in 1 article [sw14925]
  • population demographic. This paper introduces SimInf, an efficient and general framework for stochastic spatio-temporal ... connected nodes. It integrates within-node infection dynamics as continuous-time Markov chains and livestock...
  • stpm

  • Referenced in 0 articles [sw16673]
  • models with survival functions induced by stochastic covariates. Miscellaneous functions for data preparation and simulation ... information, see: (i) ”Life tables with covariates: Dynamic model for nonlinear analysis of longitudinal data ... Population Studies 12(2), 51(80), <doi:10.1080/08898480590932296>; (ii) ”Stochastic model...
  • tmlenet

  • Referenced in 1 article [sw33571]
  • specified interventions can be either static, dynamic or stochastic. Asymptotically correct influence-curve-based confidence ... Laan, “Causal inference for a population of causally connected units,” J. Causal Inference J. Causal...
  • ProtNet

  • Referenced in 1 article [sw29365]
  • computer model that captures the discrete and stochastic nature of protein interactions. In ProtNet ... seen as a sort of ”discrete molecular dynamics” applied to interacting proteins in a cell ... edges) and we have compared the dynamics of complex formation ... where simple interaction rules are applied to populations of discrete particles. This tool...
  • tmleCommunity

  • Referenced in 1 article [sw33567]
  • policy that target stochastic changes in the behavior of a target population of communities ... package supports multivariate arbitrary (i.e., static, dynamic or stochastic) interventions with a binary or continuous...
  • p-MEMPSODE

  • Referenced in 1 article [sw18235]
  • well-known and widely used population-based stochastic algorithms, namely Particle Swarm Optimization and Differential ... global optimization algorithm by means of a dynamic and multilevel approach based on the OpenMP...
  • ANSYS

  • Referenced in 704 articles [sw00044]
  • ANSYS offers a comprehensive software suite that spans...
  • Coq

  • Referenced in 1890 articles [sw00161]
  • Coq is a formal proof management system. It...
  • ESTIMA

  • Referenced in 15 articles [sw00249]
  • System identification is an iterative model building process...
  • GAP

  • Referenced in 3189 articles [sw00320]
  • GAP is a system for computational discrete algebra...
  • GAUSS

  • Referenced in 119 articles [sw00322]
  • The GAUSS Mathematical and Statistical System is a...
  • LAPACK

  • Referenced in 1702 articles [sw00503]
  • LAPACK is written in Fortran 90 and provides...