Welcome to T-REX
Software for the labeling, processing, and analysis of T-RFLP data
Overview T-RFLP data analysis requires many steps that are often time-intensive, error-prone, and can introduce unwanted variability into the analysis.
T-REX is a free, online tool that was developed to address these obstacles.
T-REX allows users to:
- Label raw data with attributes related the experimental design of the samples
- Determine a baseline threshold for identification of true peaks over noise
- Align T-RFs in all samples (bin T-RFs)
- Construct a two-way data matrix from labeled data and manipulate the matrix in a variety of ways
- Produce several measures of data matrix complexity, including the distribution of variance between main and interaction effects and sample heterogeneity
- Analyze a data matrix with the Additive Main Effects and Multiplicative Interaction Model (AMMI)
T-REX has been designed and built with flexibility in mind. Each of the menu buttons on the left correspond to a certain action performed on the data. Since these actions are to a large extent independent,
any of the buttons can be used at any time, without the need to reload or upload the same data again. Although no particular sequence of actions is imposed on the user, a typical flow of analysis is illustrated below.
It is recommended that users read the program
documentation to become familiar with the functions and processes of this software before starting. On-line help is also available on each of the sub-pages.
Getting started:
About T-REX:
This software was developed by Robert Bukowski under the guidance of Steve Culman, Hugh Gauch, Hinsby Cadillo-Quiroz and Dan Buckley.
Suggested citation:
Culman, S.W., Bukowski, R., Gauch, H.G., Cadillo-Quiroz, H., Buckley, D.H. 2008.
T-REX: Software for the Processing and Analysis of T-RFLP data. http://trex.biohpc.org/.
Please email any software-related technical questions to
Robert Bukowski and general comments or questions to
Steve Culman.