tspair: Top Scoring Pairs for Microarray Classification
Version 1.34.0

These functions calculate the pair of genes that show the maximum difference in ranking between two user specified groups. This "top scoring pair" maximizes the average of sensitivity and specificity over all rank based classifiers using a pair of genes in the data set. The advantage of classifying samples based on only the relative rank of a pair of genes is (a) the classifiers are much simpler and often more interpretable than more complicated classification schemes and (b) if arrays can be classified using only a pair of genes, PCR based tests could be used for classification of samples. See the references for the tspcalc() function for references regarding TSP classifiers.

AuthorJeffrey T. Leek <jtleek@jhu.edu>
Bioconductor views Microarray
Date of publicationNone
MaintainerJeffrey T. Leek <jtleek@jhu.edu>
LicenseGPL-2
Version1.34.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("tspair")

Popular man pages

dat: Simulated gene expression data.
grp: A group indicator.
summary.tsp: Summary of a tsp object
ts.pair: Calculation of top scoring pairs.
tspcalc: Estimate top scoring pairs from a gene expression matrix
tspplot: Graphical display of tsp objects
tspsig: Significance calculation for top scoring pairs
See all...

All man pages Function index File listing

Man pages

dat: Simulated gene expression data.
dat2: Simulated gene expression data.
eSet1: A simulated expression set.
eSet2: A simulated expression set.
grp: A group indicator.
plot.tsp: Graphical display of tsp objects
predict.tsp: Prediction based on a tsp object
summary.tsp: Summary of a tsp object
ts.pair: Calculation of top scoring pairs.
tspcalc: Estimate top scoring pairs from a gene expression matrix
tspdata: Simulated gene expression data in both matrix and expression...
tspplot: Graphical display of tsp objects
tspsig: Significance calculation for top scoring pairs

Functions

dat Man page
dat2 Man page
eSet1 Man page
eSet2 Man page
grp Man page
make.consecutive.int Source code
plot.tsp Man page Source code
predict Man page
predict.tsp Man page Source code
print.tsp Source code
summary Man page
summary.tsp Man page Source code
ts.pair Man page Source code
tspcalc Man page Source code
tspdata} \title{Simulated gene expression data in both matrix a Man page
tspplot Man page Source code
tspsig Man page Source code

Files

DESCRIPTION
INDEX
NAMESPACE
R
R/tsp.R
build
build/vignette.rds
data
data/tspdata.rda
inst
inst/doc
inst/doc/tsp.R
inst/doc/tsp.Rnw
inst/doc/tsp.pdf
man
man/dat.Rd
man/dat2.Rd
man/eSet1.Rd
man/eSet2.Rd
man/grp.Rd
man/plot.tsp.Rd
man/predict.tsp.Rd
man/summary.tsp.Rd
man/ts.pair.Rd
man/tspcalc.Rd
man/tspdata.Rd
man/tspplot.Rd
man/tspsig.Rd
src
src/tsp.c
vignettes
vignettes/subfigure.sty
vignettes/tsp.Rnw
vignettes/tsp.bib
vignettes/tsp1.pdf
vignettes/vmargin.sty
tspair documentation built on May 20, 2017, 10:31 p.m.

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