The tspair package for finding top scoring pair classifiers in R.
Top scoring pairs (TSPs) are pairs of genes whose relative rankings can be used to accurately classify individuals into one of two classes. TSPs have two main advantages over many standard classifiers used in gene expression studies: (i) a TSP is based on only two genes, which leads to easily interpretable and inexpensive diagnostic tests and (ii) TSP classifiers are based on gene rankings, so they are more robust to variation in technical factors or normalization than classifiers based on expression levels of individual genes. Here I describe the R package, tspair, which can be used to quickly identify and assess TSP classifiers for gene expression data.


BACKGROUND
The R package tspair is freely available from Bioconductor: http://www.bioconductor.org.
Leek
Jeffrey T
JT
Department of Oncology, Johns Hopkins School of Medicine, Baltimore, MD 21287, USA. jtleek@jhu.edu
D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D020869:Gene Expression Profiling / Q000379:methods*; D012984:Software