2016 - Lisboa - Portugal

PAGE 2016: Software Demonstration
Harling Kajsa

PsN and Xpose

Kajsa Harling, Andrew C. Hooker, Rikard Nordgren and Mats O. Karlsson

Pharmacometrics group, Department of Pharmaceutical Biosciences, Uppsala University, Sweden

PsN is a toolbox for population PK/PD model building using NONMEM 6 and 7. It has broad functionality ranging from results extraction from output files to advanced computer-intensive statistical methods. Updates since PAGE 2015 include major extensions to sir, a tool for fast and robust assessment of parameter uncertainty with automatically generated visual diagnostics of convergence and parameter confidence intervals, simeval, a tool for simulation-evaluation diagnostics for outlier detection, and benchmark, a tool for simple comparisons of estimation results and approximate run times across combinations of NONMEM options, Fortran compiler and NONMEM versions.

Xpose 4 is an open-source population PK/PD model building aid for NONMEM. Xpose attempts to facilitate the use of diagnostics in an efficient manner, providing a toolkit for dataset checkout, exploration and visualization, model diagnostics, candidate covariate identification and model comparison.

Xpose has customized functions for generating plots based on PsN output, and several of them can be automatically run by adding the -rplots option to the PsN command. This gives pdf documents with, for example, visual predictive checks as part of the PsN output, without the need to manually run any R script.

Both PsN and Xpose are freely available at http://psn.sourceforge.net and at http://xpose.sourceforge.net

Acknowledgments: This work was supported in part by the DDMoRe (www.ddmore.eu) and IDeAl (www.ideal.rwth-aachen.de) projects.

[1] Jonsson EN, Karlsson MO. Xpose--an S-PLUS based population pharmacokinetic/pharmacodynamic model building aid for NONMEM. Computer Methods and Programs in Biomedicine. 58(1):51-64.
[2] Lindbom L, Ribbing J, Jonsson EN. Perl-speaks-NONMEM (PsN)--a Perl module for NONMEM related programming. Comput Methods Programs Biomed. 75(2):85-94.
[3] Lindbom L, Pihlgren P, Jonsson EN. PsN-Toolkit--a collection of computer intensive statistical methods for non-linear mixed effect modeling using NONMEM. Comput Methods Programs Biomed. 79(3):241-57.
[4] Keizer RJ, Karlsson MO, Hooker A. Modeling and Simulation Workbench for NONMEM: Tutorial on Pirana, PsN, and Xpose. CPT Pharmacometrics Syst Pharmacol. (2013) 2, e50.
[5] Dosne AG, Bergstrand M, Karlsson MO. Application of Sampling Importance Resampling to estimate parameter uncertainty distributions. PAGE 22 (2013) Abstract 2907.
[6] Dosne AG, Bergstrand M, Karlsson MO. Determination of Appropriate Settings in the Assessment of Parameter Uncertainty Distributions using Sampling Importance Resampling (SIR). PAGE 24 (2015) Abstract 3546.
[7]  Largajolli A, Jönsson S, Karlsson MO. The OFVPPC: A simulation objective function based diagnostic. PAGE 23 (2014) Abstract 3208.

Reference: PAGE 25 (2016) Abstr 5916 [www.page-meeting.org/?abstract=5916]
Software Demonstration
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