TiArA: a virtual appliance for the analysis of Tiling Array data.

• Main Authors: Jason A Greenbaum, Erika Assarsson, Jo L Chung, Steven Head, Alessandro Sette, Bjoern Peters
• Format: Article
• Language: English
• Published: Public Library of Science (PLoS) 2010-04-01
• Series: PLoS ONE
• Online Access: http://europepmc.org/articles/PMC2848623?pdf=render

Genomic tiling arrays have been described in the scientific literature since 2003, yet there is a shortage of user-friendly applications available for their analysis.Tiling Array Analyzer (TiArA) is a software program that provides a user-friendly graphical interface for the background subtraction, normalization, and summarization of data acquired through the Affymetrix tiling array platform. The background signal is empirically measured using a group of nonspecific probes with varying levels of GC content and normalization is performed to enforce a common dynamic range.TiArA is implemented as a standalone program for Linux systems and is available as a cross-platform virtual machine that will run under most modern operating systems using virtualization software such as Sun VirtualBox or VMware. The software is available as a Debian package or a virtual appliance at http://purl.org/NET/tiara.