Search Results for "informatics" - Page 7
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Showing 179 open source projects for "informatics"
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Fast-DCM (Fast-DynamicCausalModelling) is an open-source addon for the SPM5 toolbox (http://www.fil.ion.ucl.ac.uk/spm/software/spm5/). It accelerates the estimation of Dynamic Causal Models.
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Experimental Lindenmayer System generator, in 3D using OpenGL. Used for modeling the fractal growth processes of plants.
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OOPS means Open Protein Simulator, it is a program designed to serve as a test bed for different algorithms for protein folding, dynamics and structure prediction. OOPS is based on a plugin architecture that makes it highly modular and extensible.
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Narrator is a graphical modelling tool for the description of dynamical systems and processes. Narrator is SBML compatible.
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GridSweeper makes it easy to perform batch runs of scientific simulation programs on computational grids/distributed resource management systems.
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A user-friendly interface for running simulations of the gene networks comprising the circadian clock. Modules allow the simulation of experimental protocols with just a few mouse clicks. Users can fine-tune simulations to suit their particular interests.
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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.
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Simulator of virtual animals made up of biological neural networks for research in the Computational Neuroscience field.
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Vertex-vertex sytems: a modelling system for dynamical discrete 2-manifolds. For more information see http://vertex-vertex.blogspot.com.
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Cellular Automata simulator. Native code (fast) and modular design: update rule, topology, time, measurement, initialization are independant. No GUI (for now...): configuration file (commented default automatically generated) overridable by command line.
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The Neural Assembly Simulation Environment (NASE) is a collection of routines written in the Interactive Data Language (IDL) by Research Systems Inc. It provides routines to simulate neural networks and to visualize those networks' behavior.
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Our goal is to create an open source framework and toolset for modeling dynamic cellular network functions, and to develop a user community committed to using, extending and exploiting these tools to further our knowledge of biologic processes.
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Molevolve is a Java library for running a Genetic Algorithm to model the 3-dimensional structures of peptide chains from amino-acid sequences. Client code can specify its own peptide chain model, fitness functions and GA operations. Requires JDK 1.5.
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Plotamber is a Perl script for an easy and automated plotting of properties derived from molecular dynamics or minimization calculations done with Amber, NAMD or Charmm.
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LineageEvolver is a simulation system for molecular evolution. Sequence evolution is simulated using modular processes such as substitutions, gene duplication/death, horizontal gene transfer, and more.
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runsbml - Pathway Simulation Tool emulates the dynamics of biological pathways by calculating concentrations of biochemical compounds at different times and conditions.
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DawgPack is an ultra-fast, Cloud-based tool that maps many high coverage genomes and performs analysis to find clues for pathogenesis. It will integrate CNV, SNP, RNA-Seq and ChIP-Seq analyses.
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PNE provides an environment for modeling, simulating, and optimizing biological networks including regulatory and metabolic networks.
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SB:M/O is a cross-platform toolbox for systems biology. It fully supports both Matlab and the open source alternative, Octave. The aim is to make it easy for the systems biology community to develop new, portable systems biology solutions.
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This project aims to develop various tools for artificial life and complex systems simulations: from the simulator itself to generic generation tools.
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Basic life is an application that desires to simulate basic life based on some basic chemistry/physics rules. This environment provides particles that can bond, vibrate, react, etc. in order to create basic cells