BayesianIUT
Introduction
Description
BayesianIUT is MATLAB and R code for testing inequality constrained hypotheses either using the intersection-union test (Berger, 1982) or a Bayesian approach thereof (Van Deun, Hoijtink, Thorrez, Van Lommel, Schuit, & Van Mechelen, 2009). Specifically, the set of hypotheses tested are H0: μj>μt for a j≠t versus H1: μt>μj for all j≠t (or, H0: μj<μt for a j≠t versus H1: μt<μj for all j≠t). Such tests are of particular interest to find genes that are preferentially up- (or down-) regulated in a specific tissue, the so-called tissue selective genes.
Authors
BayesianIUT was created by Katrijn Van Deun of the Research Group of Quantitative Psychology and Individual Differences of the Katholieke Universiteit Leuven.
References
- Berger, R.L. (1982). Multiparameter hypothesis testing and acceptance sampling. Technometrics, 24, 295-300.
- Van Deun, K., Hoijtink, H., Lieven, T., Van Lommel, L., Schuit, F., & Van Mechelen, I. (2009). Testing the hypothesis of tissue-selectivity: The Intersection-Union Test and a Bayesian approach. Bioinformatics, 25, 2588-2594.
Getting BayesianIUT
What
For MATLAB, the downloaded install file installs m-files on your hard disk. An example of how to use the code for the IUT and the Bayesian procedure can be found in the scriptfile simulationscript.m. For R, download the BayesianIUT package ("BayesianIUT_1.0.zip" file) to your computer. To install the BayesianIUT package go to the "package" menu in R and choose "install packages from local zip files..." and load the "BayesianIUT_1.0.zip" file. Next, type library("BayesianIUT") in the R script and execute this command. An example of how to use the code for the IUT and the Bayesian procedure can be found in the scriptfile simulationscript.R.
Conditions
BayesianIUT is offered free of charge to anyone interested in using the Bayesian IUT analysis, provided that it is not used for financial profit and that you properly cite the software and the papers mentioned above. Requests to use the software for any commercial purpose must be directed to the authors. The BayesianIUT program comes without any warranty of any kind. You are not allowed to redistribute a downloaded copy of the software to others. If you want others to use the BayesianIUT program, refer them to this website. See here for full license information.
How
To get the software, you have to fill out your name and e-mail address in a form. After submitting that information, an e-mail containing the address where you can download the software once will be sent to you.
Matlab: Click here to proceed to the download area.
R: Click here to proceed to the download area.
