Search Results for "stochastic"

...Solving forward/inverse integro-differential equations (IDEs) [SIAM Rev.] fPINN: solving forward/inverse fractional PDEs (fPDEs) [SIAM J. Sci. Comput.] NN-arbitrary polynomial chaos (NN-aPC): solving forward/inverse stochastic PDEs (sPDEs) [J. Comput. Phys.] PINN with hard constraints (hPINN): solving inverse design/topology optimization [SIAM J. Sci. Comput.] Residual-based adaptive sampling [SIAM Rev., arXiv] Gradient-enhanced PINN (gPINN) [Comput. Methods Appl. Mech. Eng.] PINN with multi-scale Fourier features [Comput. Methods Appl. Mech. Eng.]

...Code and release files are primarily hosted on https://github.com/LabRPS/LabRPS and mirrored here LabRPS aims to be a tool for the numerical simulation of random phenomena such as stochastic wind velocity, seismic ground motion, sea surface ... etc. It can be in a wide range of uses around engineering, such as random vibration or vibration fatigue in mechanical engineering, buffeting analysis in bridge engineering.... LabRPS is mainly to assist reseachers in related fields to quickly implement new simulation methods programmatically in their new research work based on the existing works, help engineers to numerically generate random phenomena in a more realistic way, helps students and new comers to this field to learn quickly. ...

ABC-SysBio implements likelihood free parameter inference and model selection in dynamical systems. It is designed to work with both stochastic and deterministic models written in Systems Biology Markup Language (SBML).

Stochastic simulator for signaling pathways occuring in biological cells. Handles reaction-diffusion processes in 3D tetrahedral meshes. Please check our new repository: https://github.com/CNS-OIST/STEPS

...Running in Monte Carlo mode allows generates multiple possible flight paths and splash down plots, indicating the probability of landing in an area. Peer-reviewed publication in the Journal of Open Research Software (JORS) http://doi.org/10.5334/jors.137 "Cambridge Rocketry Simulator – A Stochastic Six-Degrees-of-Freedom Rocket Flight Simulator"

StochPy - Stochastistic modeling in Python - is an easy-to-use package, which provides several stochastic simulation algorithms and unique analysis techniques, which can be used for stochastic simulations of biochemical systems.

...All the possible actions are based on the current state of factors bound to the DNA. We developed a rule builder to automatically generate the complete set of biochemical interaction rules for any given DNA sequence. Off-the-shelf stochastic simulation engines can model the behavior of a system of rules and the resulting changes in the configuration of bound factors can be visualized.

Stochastic simulation model of poliovirus Sabin-to-Mahoney genetic state transition (C++ code). Models genotypes, virus populations, and quasispecies cloud. Simulates replication error and copy-choice recombination. Various parameters guiding the model are user-specified. Python code post-processes simulation output to produce report files.

NetBuilder' is a tool for building, visualizing, and simulating multi-layered biological networks, structured as hierarchical Petri-nets. It has a built-in stochastic simulator, but also provides easy access to other simulation and analysis.

STOCHSIM is a stochastic simulator for biochemical reactions. The particles are represented as individual software objects which react according to probabilities derived from concentrations and rate constants. Simple spatial structures can be built.

Path Sim contains a collection of tools for analysing Biochemical pathways with respect to stochastic behavior and cell-to-cell variations.

Development codes for hierarchical stochastic block models

Software package for stochastic and hybrid simulation of microtubule dynamics and the effects of anti-mitotic drugs and microtubule regulatory proteins.