CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation and visualization

• DOI: 10.1093/bioinformatics/btx378
• Publication Date: 2017-06-08T11:09:22Z
• Authors: Taosheng Xu; Thuc Duy Le; Lin Liu; Ning Su; Rujing Wang; Bingyu Sun; Antonio Colaprico; Gianluca Bontempi; Jiuyong Li
• Keywords: Bioconductor; Identification; R package; Personalized Medicine

Identifying molecular cancer subtypes from multi-omics data is an important step in the personalized medicine. We introduce CancerSubtypes, R package for identifying using data, including gene expression, miRNA expression and DNA methylation data. CancerSubtypes integrates four main computational methods which are highly cited subtype identification provides a standardized framework pre-processing, feature selection, result follow-up analyses, results computing, biology validation visualization. The input output of each packaged same format, making it convenience to compare different methods. useful inferring genomic dataset, comparing predictions well-known testing new discovery methods, as shown with application scenarios Supplementary Material.The implemented available under GPL-2 license Bioconductor website (http://bioconductor.org/packages/CancerSubtypes/)[e-mail] or [e-mail] at Bioinformatics online.