NetRaVE: constructing dependency networks using sparse linear regression

• Published in: Bioinformatics Vol. 26; no. 12; pp. 1576 - 1577
• Main Authors: Phatak, A., Kiiveri, H., Clemmensen, L.H., Wilson, W.J.
• Format: Journal Article
• Language: English
• Published: Oxford Oxford University Press 15.06.2010
• Subjects: Algorithms; Biological and medical sciences; Fundamental and applied biological sciences. Psychology; Gene Expression Profiling - methods; General aspects; Linear Models; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects); Oligonucleotide Array Sequence Analysis - methods; Software; User-Computer Interface; Linear regression; Network; Regression analysis
• ISSN: 1367-4803; 1460-2059; 1367-4811
• DOI: 10.1093/bioinformatics/btq168

NetRaVE is a small suite of R functions for generating dependency networks using sparse regression methods. Such networks provide an alternative to interpreting ‘top n lists’ of genes arising out of an analysis of microarray data, and they provide a means of organizing and visualizing the resulting information in a manner that may suggest relationships between genes. Availability: NetRaVE is freely available for academic use and has been tested in R 2.10.1 under Windows XP, Linux and Mac OS X. Contact: harri.kiiveri@csiro.au Supplementary information: Supplementary data are available at Bioinformatics online.