Search Results for "kinetics"
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Showing 33 open source projects for "kinetics"
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SlowFast
Video understanding codebase from FAIR for reproducing video models
...Together, these two pathways complement each other, allowing the network to model both appearance and motion without excessive computational cost. The architecture is modular and supports tasks like action recognition, temporal localization, and video segmentation, performing strongly on benchmarks like Kinetics and AVA. The repository provides training recipes, pretrained models, and distributed pipelines optimized for large-scale video datasets. -
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Catalyst.jl
Chemical reaction network and systems biology interface
...Symbolic ReactionSystems can be used to generate ModelingToolkit-based models, allowing the easy simulation and parameter estimation of mass action ODE models, Chemical Langevin SDE models, stochastic chemical kinetics jump process models, and more. Generated models can be used with solvers throughout the broader SciML ecosystem, including higher-level SciML packages (e.g. for sensitivity analysis, parameter estimation, machine learning applications, etc). -
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OpenFOAM
The Open Source CFD Toolbox
OpenFOAM - The Open Source CFD Toolbox. OpenFOAM is a generic, programmable software tool for Computational Fluid Dynamics (CFD). For more information, see: - Main Website: https://openfoam.org - C++ Source Documentation: https://cpp.openfoam.org - Issue (Bug) Tracking: https://bugs.openfoam.org - User Guide: https://cfd.direct/openfoam/user-guide -
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Nest-o-Patch
Software for analysis of patch-clamp recordings and other wave data
...Program can display and analyse long traces incuding many sweeps, series and even groups simultaneously. Current amplitudes or time intervals are easily measured. Single channel conductance, kinetics, NPo, as well as number of channels in a patch and their open probability may be estimated with the analysis of dwelling time at each conductance level. The program directly reads files, created by Pulse and PatchMaster software (HEKA Elektronik Dr. Schulze GmbH) as well as ASCII files. However, the program may be useful in various applications when editing and measurements in a 2-dimentional (for example time-current) wave are required. -
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ADE_3D_FEM
A 3D ADE FEM solver including a manual and a basic preprocessor
A 3D Advection-Diffusion Equation Finite Element Method solver including a user's manual and a basic pre-proccessor. -
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Cantera is a suite of object-oriented software tools for problems involving chemical kinetics, thermodynamics, and/or transport processes. It can be used from MATLAB, Python, C++, or Fortran.
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DissoKin
Dissolution Kinetics Software Excel Based
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I3D models trained on Kinetics
Convolutional neural network model for video classification
Kinetics-I3D, developed by Google DeepMind, provides trained models and implementation code for the Inflated 3D ConvNet (I3D) architecture introduced in the paper “Quo Vadis, Action Recognition? A New Model and the Kinetics Dataset” (CVPR 2017). The I3D model extends the 2D convolutional structure of Inception-v1 into 3D, allowing it to capture spatial and temporal information from videos for action recognition. -
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nlabck
Numerical Laboratory on Chemical Kinetics
NLabCK is an open source software tool to simulate numerically the behavior of reacting chemical systems or other dynamical systems (changing over time) provided they can be represented as a set of molecular chemical reactions. -
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3D ResNets for Action Recognition
3D ResNets for Action Recognition (CVPR 2018)
We uploaded the pretrained models described in this paper including ResNet-50 pretrained on the combined dataset with Kinetics-700 and Moments in Time. We significantly updated our scripts. If you want to use older versions to reproduce our CVPR2018 paper, you should use the scripts in the CVPR2018 branch. -
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...Has a facility to compare 3 empirical models on the same graph to visually judge which model predicts the experimental data better. The empirical models can be input in the GUI as user-defined functions. This tool was written for the publication of "Modelling of Curing Kinetics of Amine Cured Epoxy Resins for Vacuum Assisted Resin Infusion Molding" (The Canadian Journal of Chemical Engineering, 2013), where the proposed empirical mathematical model was verified with experimental data to predict conversion rate of curing kinetics. In collaboration with Indian Institute of Technology, India.
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diauxic growth model ensemble
An ensemble of models showing diauxic growth behavior
...The models in the ensemble can be categorized according to regulatory, stoichiometric, and physiological constraints and differ from each other on only a single aspect. We distinguish four groups of models: (1) flux balance models that only define reaction kinetics for substrate uptake and by-product excretion, (2) kinetic models without and (3) kinetic models with regulation on the metabolic and/or genetic level, and (4) resource allocation models. -
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cupSODA
Deterministic simulator of mass-action based models
cupSODA is a simulator of biological systems that exploits the remarkable memory bandwidth and computational capability of GPUs. cupSODA allows to efficiently execute in parallel large numbers of simulations, which are usually required to investigate the emergent dynamics of a given biological system under different conditions. cupSODA works by automatically deriving the system of ordinary differential equations from a reaction-based mechanistic model, defined according to the mass-action kinetics, and then exploiting the numerical integration algorithm, LSODA -
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FAST Simulations
An Open source Analysis and SImulation Toolbox for Fuel Cells
...FAST-FC is developed and maintained by the original creator and developer, David B. Harvey. Features of FAST-fc include transport of gases and liquids, multi-step reaction kinetics, transient and steady state operation for performance and durability, and scalable dimensionality from 1D - 3D domains. Future development work is on-going in FAST-fc and our strategic development schedule includes membrane degradation, improved liquid water transport models through the application of pore networks, and extension to stack-level simulation. -
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Pyclamp
A Python package used to extract and analyse electrophysiological data
...Presently, Pyclamp is designed to perform very specific forms of analysis on evoked synaptic responses: Data analysis (under development) : This is a highly user-interactive en-vironment that can be used to discriminate synaptic events, obtain various measures of their kinetics and size, and output the results. Quantal analysis : This part of the package performs simple variance-mean analysis and Bayesian quantal analysis to estimate the quantal sizea dn number of release sites among other measures. -
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Polaris CFD
Aerodynamics simulations based on gas kinetics
Polaris CFD is a complete CFD software suite for Aerodynamics simulations created by Alta Dynamics. It is validated to provided accurate results for both internal and external flow problems. Its viewer is built on ParaView for pre and post processing. -
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Chemical Kinectics Solver
Basic Chemical Kinetics Solver
The project lives on GitHub - please see: https://github.com/DetlevCM/chemical-kinetics-solver -
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SPR MCMC
A windows executable for running the Bayesian inference on SPR data.
A windows executable (C# application) to run the Bayesian inference to estimate the affinity kinetics as well as the active concentration on the SPR (surface plasmon resonance) data. -
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ForStoch
Fortran Stochastic Simulator for Chemical Kinetics
ForStoch is a FORTRAN software suite for Stochastic Simulation of Checimal Kinetics. The stochastic simulation algorithm (SSA), proposed by Gillespie, is a cardinal simulation method for the chemical kinetics. Because the SSA simulates every reaction event, the amount of the computational time is huge when models have many reaction channels and species.This drawback motivates many attempts to improve the efficiency with the accuracy.The ForStoch includes orignial Gillespie SSA and other approximation algorithms. ... -
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NanocalcFX
Open Source Data Evaluation Software
NanocalcFX is a free and open source evaluation software for a simple yet comfortable solution to deal with thousands of transport kinetics measured with a fluorescence microscope or similar kinetics. Data can be imported from CSV or Excel files or using the dedicated image stack analyser (NISA). You can get sample data at the nanocalcFX homepage. Note that nanocalcFX is currently in a beta state. -
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BriPy
A BRIC-seq data analysis package written in Python.
...-What is BriPy? BriPy package is a BRIC-seq data analysis tool written in Python. It can calculate RNA half-life for each transcript and draw graphs describing the kinetics of RNA decay. In the future, it will provide several useful modules(e.g. calculating RPKM of each transcript from BAM file or ELAND output file). -Prerequisites To use BriPy package, you will need Python and the following extension packages. Python2.7 or higher NumPy SciPy Matplotlib -
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modelMaGe2.0 is a software application that automatically generates mathematical models in Copasi format (www.Copasi.org) by removing model components from a given master model. Candidate models can automatically be fitted to provided data.
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PLASMAKIN: a chemical kinetics package
A library to compute the electron and chemical kinetics on plasmas
PLASMAKIN is a package to handle physical and chemical data used in plasma physics modeling and to compute gas-phase and gas-surface kinetics data: particle production and loss rates, photon emission spectra and energy exchange rates. -
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itermd
Software tools for applications of simulations by iterations.
...The claim of these tools is to facilitate the programming of simulations by providing routines to quickly generate: -display windows and input parameters -help to display the variation in the data as graphs -management of iterations Goal for the user: quickly programme his simulation. Requires knowledge of C language. Knowledge of gtk and cairo (for simple graphs) is not necessary. See examples. -sugar fermentation kinetics -parachute drop -cycle of a water tank heated by solar panels -curve of chase For your simulation, simply copy and adapt some lines corresponding explicit examples.
