Software Tool for Analysis of Variance of DNA Microarray Data

摘要

This report describes a software tool for two-way analysis of variance(ANOVA) with repeated measures on one factor for use in a multitude of problems, including the analysis of Affymetrix GeneChip TM microarry data. The proposed software has been used to analyze more than 22,000 probe sequences in less than 1 minute. The tool is entirely written in Java and as a result, is platform-independent. The current implementation of the tool only allows for one-way and two-way ANOVA. However, the internal data structure is designed to be able to hold data for multi-way ANOVA. The output is written to a tab- delimited test file and, accordingly, the tool can be easily extended to save the results directly into a relational database.