| A-Cell |
A-Cell is software for constructing biochemical reaction and electrical models of a biological cell, especially a neuron. The most distinguishing advantage of A-Cell is that it can construct complicated and complex biological models through GUI(Graphical User Interface), which enables users to view and understand overall structure of the model. |
| Antwerp Theoretical Neurobiology |
The Theoretical Neurobiology unit (principal investigator: Prof. Erik De Schutter) is part of the Born-Bunge Foundation, a research institute affiliated with the University of Antwerp - UIA (Belgium). |
| Berkeley Madonna |
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| BioPSE |
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| Catacomb |
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| Computational Neuroanatomy Group |
The website describes the L-Neuron project whose primary goal is to create virtual neurons that are anatomically indistinguishable from their real counterparts. |
| Computational Neuroscience Journal Club |
The Computational Neuroscience Journal Club at The Univeristy of Texas Medical School at Houston presents and discusses recent developments in computational neuroscience. |
| Conical |
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| DARPA BioSPICE |
Mission: To develop a computational framework that enables the construction of sophisticated models of intracellular processes that can be used to predict and control the behavior of living cells. In addition, to generate new computational paradigms and engineering applications that utilize biomolecules as an information processing, sensing, or structural components. |
| ENL/PLEXUS |
This page contains information and examples of research techniques used or are developing by the lab:
- simulation of very large networks using our own software
- one and two dimensional models of current flow in the smooth muscle syncytium
- system identification to build "black or gray" models of intestinal components
- biophysically realistic models of neuron currents
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| EONS |
A multi-level modeling system EONS , Elementary Objects of Neural Systems, to provide a general framework for representing structural relationships and functional interactions among different levels of neural organization. |
| Genesis |
A general purpose simulation platform which was developed to support the simulation of neural systems ranging from complex models of single neurons to simulations of large networks made up of more abstract neuronal components. |
| Gepasi |
A software package for modeling biochemical systems. It simulates the kinetics of systems of biochemical reactions and provides a number of tools to fit models to data, optimize any function of the model, perform metabolic control analysis and linear stability analysis. |
| Maxsim |
The website describes the MAXSIM which is an Interactive Viewer / Simulator for Axonal Arbors. |
| MCELL |
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| Monist |
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| NEOSIM |
The website describes the NEOSIM project which aims to develop efficient, portable software tools for large scale systems modelling of the nervous system, integrating computational models ranging from the sub-cellular to the whole brain level. |
NEST Initiative
(formerly Bliss / Synod) |
The website describes the SYNOD program which is a tool for simulating biologically oriented neuronal networks. |
| Neuron |
a simulation environment for developing and exercising models of neurons and networks of neurons. |
| NeuronC |
The website describes the NeuronC, a neural circuit simulation language that allows a user to construct a realistic biophysically-based model of a neural circuit (1 to 10,000 neurons) and simulate a physiology experiment on it. |
| Neuroscience Database Gateway |
a searchable, curated database of neuroinformatics resources on the internet. |
| Neuroscience Research Center |
The Neuroscience Research Center (NRC), located at The University of Texas Health Science Center at Houston, is a university-wide center where diverse and multidisciplinary research is conducted to further the understanding of neural and behavioral disorders. |
| Nodus |
a software package designed for simulation of the electrical behavior of neurons and small networks. |
| NSL |
A multi-level modeling system EONS , Elementary Objects of Neural Systems, to provide a general framework for representing structural relationships and functional interactions among different levels of neural organization. |
| SONN |
The website describes the SONN (Simulator of Neuronal Networks) program which is a computer program that simulates the behavior of neuronal networks. |
| Surf-Hippo |
The website describes the Surf-Hippo neuron simulator which is a public domain package written in Lisp for Unix workstations and PCs that is used to investigate morphometrically and biophysically detailed compartmental models of single neurons and networks of neurons. |
| XNBC |
The website describes the XNBC v8 which is a simulation tool for the neuroscientists interested in simulating biological neural networks using a user friendly tool. |
| XPP |
XPP is a tool for solving differential equations, difference equations, delay equations, functional equations, boundary value problems, and stochastic equations. |
