Search Results for "sbml"
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Showing 12 open source projects for "sbml"
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Systems Biology Markup Language (SBML)
A file format for exchanging computational models in systems biology
The Systems Biology Markup Language (SBML) is an XML-based description language for representing computational models in systems biology. Visit the project web site to learn more. -
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SBW (Systems Biology Workbench)
Framework for Systems Biology
...It comes with a large number of modules, encompassing the whole modeling cycle: creating computational models, simulating and analyzing them, visualizing the information, in order to improve the models. All using community standards, such as SED-ML, SBML and MIRIAM. -
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Antimony
Antimony is a human-readable, human-writable model definition language
Antimony is a human-readable, human-writable model definition language. libAntimony is a library that will read and write Antimony and SBML files and provides an API for other programs to import Antimony models into their own internal formats. -
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Flint
A simulator for biological and physiological models
Flint is a simulator for biological and physiological models written in CellML, PHML and/or SBML. -
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RoadRunner represents a state-of-the-art simulation library for SBML models. It is fast, portable and accurate. This projects hosts the library and tools using the library.
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SBSI (Systems Biology Software Infrastructure) is a suite of tools for systems biology, such as parallelized numerical algorithms, and a Java, Eclipse RCP based client for visualizing results, running simulations, and integrating SBML based plugins.
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Arcadia is a light-weight, cross-platform, C++ desktop application designed for visualizing biological networks such as metabolic pathways.
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The SBML ODE Solver is a command-line tool and programming library (ISO/ANSI C) for construction and numerical integration of an ODE system, derived from an SBML based description of a biochemical reaction network. Development has moved to https://github.com/raim/SBML_odeSolver . Please download the latest version from there!
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Braincirc is an open source modelling environment for building and sharing models. It is designed for UNIX-like systems, and is particularly appropriate for biological/chemical models. Below is the latest release with some SBML support.
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sbmlop is a command-line utility to create, view and manipulate SBML (the Systems Biology Markup Language). It is ideally suited for operating on large batches of SBML files, and can extract and modify information using regular expressions.
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AutoGuider is an integrated environment for continuation and bifurcation analysis. Based on Auto2000, it is designed to be portable and easy to use/install. Features includes a project manager, support for MathML and SBML, and SVG export of graphics.
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The SBMLevolver is an evolutionary algorithm package that creates SBML models with user-specified properties and behaviour from a given set of building blocks. Applications lie in network reconstruction and synthetic biology.
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