Published by the Foundation for Open Access Statistics Editors-in-chief: Bettina Grün, Torsten Hothorn, Rebecca Killick, Edzer Pebesma, Achim Zeileis    ISSN 1548-7660; CODEN JSSOBK
Authors: Michael Lawrence, Dianne Cook, Eun-Kyung Lee, Heather Babka, Eve Syrkin Wurtele
Title: explorase: Multivariate Exploratory Analysis and Visualization for Systems Biology
Abstract: The datasets being produced by high-throughput biological experiments, such as microarrays, have forced biologists to turn to sophisticated statistical analysis and visualization tools in order to understand their data. We address the particular need for an open-source exploratory data analysis tool that applies numerical methods in coordination with interactive graphics to the analysis of experimental data. The software package, known as explorase, provides a graphical user interface (GUI) on top of the R platform for statistical computing and the GGobi software for multivariate interactive graphics. The GUI is designed for use by biologists, many of whom are unfamiliar with the R language. It displays metadata about experimental design and biological entities in tables that are sortable and filterable. There are menu shortcuts to the analysis methods implemented in R, including graphical interfaces to linear modeling tools. The GUI is linked to data plots in GGobi through a brush tool that simultaneously colors rows in the entity information table and points in the GGobi plots.

Page views:: 5010. Submitted: 2007-01-31. Published: 2008-04-03.
Paper: explorase: Multivariate Exploratory Analysis and Visualization for Systems Biology     Download PDF (Downloads: 5590)
explorase_1.2.0.tar.gz: R source package Download (Downloads: 1357; 1MB) Example data sets Download (Downloads: 1379; 529KB)

DOI: 10.18637/jss.v025.i09

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Paper: Creative Commons Attribution 3.0 Unported License
Code: GNU General Public License (at least one of version 2 or version 3) or a GPL-compatible license.