affylmGUI: a graphical user interface for linear modeling of single channel microarray data

James M Wettenhall; Ken M Simpson; Keith Satterley; Gordon K Smyth

doi:10.1093/bioinformatics/btl025

affylmGUI: a graphical user interface for linear modeling of single channel microarray data

Bioinformatics. 2006 Apr 1;22(7):897-9. doi: 10.1093/bioinformatics/btl025. Epub 2006 Feb 2.

Authors

James M Wettenhall¹, Ken M Simpson, Keith Satterley, Gordon K Smyth

Affiliation

¹ Bioinformatics Division, The Walter and Eliza Hall Institute of Medical Research, 1G Royal Pde, Parkville 3050, Australia.

PMID: 16455752
DOI: 10.1093/bioinformatics/btl025

Abstract

Summary: affylmGUI is a graphical user interface (GUI) to an integrated workflow for Affymetrix microarray data. The user is able to proceed from raw data (CEL files) to QC and pre-processing, and eventually to analysis of differential expression using linear models with empirical Bayes smoothing. Output of the analysis (tables and figures) can be exported to an HTML report. The GUI provides user-friendly access to state-of-the-art methods embodied in the Bioconductor software repository.

Availability: affylmGUI is an R package freely available from http://www.bioconductor.org. It requires R version 1.9.0 or later and tcl/tk 8.3 or later and has been successfully tested on Windows 2000, Windows XP, Linux (RedHat and Fedora distributions) and Mac OS/X with X11. Further documentation is available at http://bioinf.wehi.edu.au/affylmGUI CONTACT: keith@wehi.edu.au.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Bayes Theorem
Computer Graphics*
Gene Expression Profiling / methods*
Linear Models*
Oligonucleotide Array Sequence Analysis / methods*
Software*
User-Computer Interface*