choicesoli.blogg.se - Adium review pill

#Adium review pill software#

* the GUI interface, with tables for reactions, species, compartments, etc.

* The rates of reaction can be picked from a set of predefined kinetic functions (the most common in biochemistry), or arbitrary functions defined by the user.

* Compartments can have variable sizes (ie they can be variables of the model).

* Arbitrary differential equations these have to be added explicitly by the user and can be mapped to species, compartments, or generic variables.

* Arbitrary discrete events these can be used to change the model, or just to monitor the progress of simulations.

* Unlimited number of species, reactions, and compartments.

#Adium review pill software#

COPASI automatically converts the reaction network to a set of differential equations or to a system of stochastic reaction events - the user does not have to write down the math explicitly, the software does that. This maps directly to biochemical reaction networks, but can also represent other types of processes (for example, the species could be cell types). Each species is located in a compartment, which is a physical location with a size (volume, area, etc).

Models in COPASI are based on reactions that convert a set of species into another set of species. COPASI provides means to visualize data in customizable plots, histograms and animations of network diagrams. COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.ĬOPASI is a stand-alone program that supports models in the SBML standard and can simulate their behavior using ODEs or Gillespie's stochastic simulation algorithm arbitrary discrete events can be included in such simulations.ĬOPASI carries out several analyses of the network and its dynamics and has extensive support for parameter estimation and optimization.