99 Open source projects that are alternatives of or similar to CellMLToolkit.jl

A library of useful callbacks for hybrid scientific machine learning (SciML) with augmented differential equation solvers

GPU-acceleration routines for DifferentialEquations.jl and the broader SciML scientific machine learning ecosystem

Multi-language suite for high-performance solvers of differential equations and scientific machine learning (SciML) components

A library for building differential equations arising from physical problems for physics-informed and scientific machine learning (SciML)

Fast uncertainty quantification for scientific machine learning (SciML) and differential equations

SBML differential equation and chemical reaction model (Gillespie simulations) for Julia's SciML ModelingToolkit

The SciML Scientific Machine Learning Software Organization Website

Benchmarking, testing, and development tools for differential equations and scientific machine learning (SciML)

Julia interface to Sundials, including a nonlinear solver (KINSOL), ODE's (CVODE and ARKODE), and DAE's (IDA) in a SciML scientific machine learning enabled manner

Benchmarks for scientific machine learning (SciML) software and differential equation solvers

A framework for developing multi-scale arrays for use in scientific machine learning (SciML) simulations

Robust, Fast, and Parallel Global Sensitivity Analysis (GSA) in Julia

Solving differential equations in R using DifferentialEquations.jl and the SciML Scientific Machine Learning ecosystem

Boundary value problem (BVP) solvers for scientific machine learning (SciML)

Universal modeling and simulation of fluid dynamics upon machine learning

Backend for DiffEqOnline, a webapp for scientific machine learning (SciML)

A collection of functionality around rooted trees to generate order conditions for Runge-Kutta methods in Julia for differential equations and scientific machine learning (SciML)

A component of the DiffEq ecosystem for enabling sensitivity analysis for scientific machine learning (SciML). Optimize-then-discretize, discretize-then-optimize, and more for ODEs, SDEs, DDEs, DAEs, etc.

Helicopter Scientific Machine Learning (SciML) Challenge Problem

Latent Differential Equations models in Julia.

Wrappers for the SciPy differential equation solvers for the SciML Scientific Machine Learning organization

Lightweight and easy generation of quasi-Monte Carlo sequences with a ton of different methods on one API for easy parameter exploration in scientific machine learning (SciML)

Fast Poisson Random Numbers in pure Julia for scientific machine learning (SciML)

This package contains a macro for converting expressions to use muladd calls and fused-multiply-add (FMA) operations for high-performance in the SciML scientific machine learning ecosystem

Parameter estimation for dynamical models using high-performance computing, batch and mini-batch optimizers, and dynamic load balancing.

Owl's Differential Equation Solvers

Utility functions for exponential integrators for the SciML scientific machine learning ecosystem

Designs for new Base array interface primitives, used widely through scientific machine learning (SciML) and other organizations

A simple but powerful C++ DAE (Differential Algebraic Equation) solver

The SBML Test Suite is a conformance testing system. It allows developers and users to test the degree and correctness of the SBML support provided in a software package.

Easy scientific machine learning (SciML) parameter estimation with pre-built loss functions

ODE system solver made simple. For IVPs (initial value problems).

A common interface for quadrature and numerical integration for the SciML scientific machine learning organization

Fortran Library for numerical INTegration of differential equations

Fortran Object-Oriented Differential-equations Integration Environment, FOODIE

Automatic optimization and parallelization for Scientific Machine Learning (SciML)

Bulirsch-Stoer integration of systems of ordinary differential equations in JavaScript

C++ library for ODE integration via Taylor's method and LLVM

A library of noise processes for stochastic systems like stochastic differential equations (SDEs) and other systems that are present in scientific machine learning (SciML)

Public repository for the proposal “Physics-Informed Machine Learning Simulator for Wildfire Propagation” - MLJC University of Turin - ProjectX2020 Competition (UofT AI)

PyDEns is a framework for solving Ordinary and Partial Differential Equations (ODEs & PDEs) using neural networks

Python library for ODE integration via Taylor's method and LLVM

An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets, OptKnock, RobustKnock, OptCouple and more!

The CoLoMoTo Interactive Notebook: Accessible and Reproducible Computational Analyses for Qualitative Biological Networks

Workshop in omics integration and systems biology

Work in Progress to refactor and modernize the ODEPACK Library

library of numerical methods using Armadillo

A web application to visualize and edit pathway models

A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard formats.

An integrated software environment for multi-algorithm, multi-timescale, multi-spatial-representation simulation of various cellular phenomena

A COBRApy extension for genome-scale models of metabolism and expression (ME-models)

Software Suite for Advanced General Ensemble Simulations

A python library for metabolic networks sampling and analysis

The consensus GEM for Saccharomyces cerevisiae

A web application to visualize and edit the pathway models represented by SBGN Process Description Notation

📖 Generation and Applications of Knowledge Graphs in Systems and Networks Biology

Piecewise Deterministic Markov Processes in Julia

💹 SIMON is powerful, flexible, open-source and easy to use machine learning knowledge discovery platform 💻

Simulate PK-PD models defined as ODE systems

Documentation, models and code relating to the 3rd edition of the textbook Stochastic Modelling for Systems Biology