ORIOGEN (O rder R estricted I nference
for O rdered G ene E xpressioN )
and multidimensional pairwise comparisons
Developed by:
Shyamal D. Peddada
Biostatistics Branch
National Institute of Environmental Health Sciences
National Institute of Health
peddada@niehs.nih.gov
Programmed by:
John Zajd and Shawn Harris
Constella Group, Inc.
shawn_harris@sra.com
© Copyright 2004-2010
ORIOGEN Version 4.01 Release Description
This is a JAVA based software package that can be used for the following purposes:
Acknowledgements
We thank Drs. Leping Li, David M. Umbach and Clarice Weinberg, Biostatistics Branch, NIEHS, for numerous discussions and their feedback during the preparation of an earlier version of this software.
References
Guo, W., and Peddada, SD. (2008). Adaptive Choice of the Number of Bootstrap Samples in Large Scale Multiple Testing. Statistical Applications in Genetics and Molecular Biology, 7 (1), Art. 13.
Guo W, Sarkar SK, Peddada, SD (2010). Controlling False Discoveries in Multidimensional Directional Decisions, with Applications to Gene Expression Data on Ordered Categories. Biometrics, 66, 485 - 492.
Peddada, S., Lobenhofer, E., Li, L., Afshari, C., Weinberg, C., and Umbach. D. M. (2003). Gene selection and clustering for time-course and dose-response microarray experiments using order restricted inference. Bioinformatics, 7, 834-841.
Peddada SD, Harris S, Zajd J and Harvey E. (2005). ORIOGEN: Order Restricted Inference for Ordered Gene Expression data. Bioinformatics, 21, 3933-3934.
Peddada SD, Harris SF, Davidov O (2010). Analysis of Correlated Gene Expression Data on Ordered Categories. J. Indian Society of Agricultural Statistics Indian Society of Agricultural Statistics. 64(1), 45-60.