Java Treeview—extensible visualization of microarray data

• Published in: Bioinformatics Vol. 20; no. 17; pp. 3246 - 3248
• Main Author: SALDANHA, Alok J
• Format: Journal Article
• Language: English
• Published: Oxford Oxford University Press 22.11.2004; Oxford Publishing Limited (England)
• Subjects: Biological and medical sciences; Color; Computer Graphics; Databases, Bibliographic; Fundamental and applied biological sciences. Psychology; Gene Expression Profiling - methods; General aspects; Information Storage and Retrieval - methods; Internet; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects); Oligonucleotide Array Sequence Analysis - methods; Programming Languages; Sequence Analysis, DNA - methods; Software; User-Computer Interface; Visualization; JAVA language; DNA chip; Development; Software; Web site; Bioinformatics
• ISSN: 1367-4803; 1460-2059; 1367-4811
• DOI: 10.1093/bioinformatics/bth349

Open source software encourages innovation by allowing users to extend the functionality of existing applications. Treeview is a popular application for the visualization of microarray data, but is closed-source and platform-specific, which limits both its current utility and suitability as a platform for further development. Java Treeview is an open-source, cross-platform rewrite that handles very large datasets well, and supports extensions to the file format that allow the results of additional analysis to be visualized and compared. The combination of a general file format and open source makes Java Treeview an attractive choice for solving a class of visualization problems. An applet version is also available that can be used on any website with no special server-side setup. Availability: http://jtreeview.sourceforge.net under GPL.