PopED - An optimal experimental design software
Joakim Nyberg, Sebastian Ueckert, Mats O. Karlsson and Andrew C. Hooker
of Pharmaceutical Biosciences, Uppsala University, Sweden
PopED is an Optimal Experimental Design tool for Non-Linear Mixed Effect Models . Key features of PopED include the ability to optimize over multiple possible models as well as to assume distributions around model parameter values (ED-optimal design). For the latter PopED can use asymptotically exact Monte-Carlo methods or faster performing Laplace approximations for the integration step. PopED allows the user to optimize over any design variable (sample times, doses, number of individuals, start and stop time of experiments, infusion lengths etc...) greatly enhancing the information content of experiments. In addition to that, the possibility to use inter-occasion variability has been included in the latest version.
PopED consists of two parts, a script version, responsible for all optimal design calculations, and a Graphical User Interface (GUI), facilitating the setup of an optimization task for users. The script version can use either Matlab or Freemat as an underlying engine. The GUI is a window based application written in C# that can be run with .NET 2.0 (MS Windows) or with Mono (Linux/MacOS). In addition to easing the building up of an experimental design optimization, the GUI also provides model templates and examples as well as tools for interpretation of the optimal design outcome and ways to validate and simulate models prior to optimization. All these tools are also accessible via the script version of PopED. PopED is freely available at poped.sf.net.
. Foracchia, M., et al., POPED, a software for optimal experiment design in population kinetics. Comput Methods Programs Biomed, 2004. 74(1): p. 29-46.