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Bioinformatics Advance Access published online on August 18, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti637
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© The Author (2005). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oupjournals.org
Received June 1, 2005
Revised August 15, 2005
Accepted August 16, 2005

Applications note

ORIOGEN: order restricted inference for ordered gene expression data

S. Peddada 1*, S. Harris 2, J. Zajd 2, and E. Harvey 2

1 Biostatistics Branch, National Institute of Environmental Health Sciences, Durham, NC 27713, USA
2 Constella Group, LLC, Durham, NC 27713, USA

* To whom correspondence should be addressed.
S. Peddada, E-mail: peddada{at}niehs.nih.gov


  Abstract

Summary: ORIOGEN is a user-friendly Java-based software package for selecting and clustering genes according to their profiles across various treatment groups. In particular, ORIOGEN is useful for analyzing data obtained from time-course or dose-response type experiments.

Availability: The ORIOGEN software can be downloaded freely from http://dir.niehs.nih.gov/dirbb/oriogen/index.cfm.

Supplementary Information: ORIOGEN has a full set of help files. Also, an example input file is provided with the download.


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