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METIL is a python-like interpreted or compiled language made for speed and generic programming, as in C++ but with static symbolic computations, type propagation, "for" surdefinition. Object orientation is centered on properties, rather than hierarchy.
Cellogica is a cellular logic analysis tool. It incorporates sequential logic and finite state machine to elucidate the relationship between transcription factors and corresponding gene expression.
A collection of modules and enduser tools designed to help design, test and use system models. While my research (hence, the examples) is focused on hydro-ecological systems, the program can be used on any system characterized by ODEs (and soon PDEs?)
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SimED is a user-friendly Differential Equation simulation software. It can integrate numerically ODEs (Ordinary Differential Equations) using several methods, plot time and phase-space diagrams for variables, and interactively choose initial conditions.
FEVal, the Finite Element Evaluator written in Python, provides easy conversion for many Finite Element data formats (both binary and ascii). Mesh modification is very easy. Values of model results can be accessed given coordinates in physical space.
Simulator for large neuronal networks using leaky INF as its basic element. Simple few line scripts will enable rapid creation of large networks with different connectivities. Aimed at researchers interested in quickly testing large networks of neurons.
aVolve is an evolutionary/genetic algorithm designed to evolve single-cell organisms in a micro ecosystem. It currently uses the JGAP Genetic algorithm, but does include a primitive genetic algorithm written in Python.
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Freeode is a compiler for the SIML programming language. It is a specialized language to solve differential equations. The compiler creates a python program that uses Numpy and Scipy to do the numerical computations.
Python program devoted to study the relationship between cells during inmune response. It is based on a 3D periodic boundary conditions grid where cells see each other and react according to certain movement, growth and interaction rules.
Distributions Networks Analyzer (DNA) is a tool for simulating (power flow) and analyzing electrical distribution networks. Users can easily implement and test their own power flow, optimal power flow and control algorithms.
Networked training tool for Air Traffic Controllers
Crujisim is a tool to allow Air Traffic Controllers trainees to practice in a radar environment. Different users connect to a hosting server to act either as controllers for adjacent positions or pseudopilots.