ROTS: Reproducibility-Optimized Test Statistic
Version 1.4.0

Calculates the Reproducibility-Optimized Test Statistic (ROTS) for differential testing in omics data.

Browse man pages Browse package API and functions Browse package files

AuthorFatemeh Seyednasrollah, Tomi Suomi, Laura L. Elo
Bioconductor views DifferentialExpression GeneExpression Microarray Proteomics RNASeq Software
Date of publicationNone
MaintainerFatemeh Seyednasrollah <fatsey@utu.fi>
LicenseGPL (>= 2)
Version1.4.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("ROTS")

Man pages

affySpikeIn: Gene expression data from the Affymetrix spike-in experiment
plot.ROTS: Plotting of a ROTS object
ROTS: Reproducibility-Optimized Test Statistic (ROTS)
summary.ROTS: Summary of a ROTS object
upsSpikeIn: Protein expression data from the CPTAC Technology Assessment...

Functions

NeedForSpeed1 Source code
NeedForSpeed2 Source code
ROTS Man page
ROTS-package Man page
affySpikeIn Man page
affySpikeIn.L Man page
affySpikeIn.gnames Man page
plot.ROTS Man page Source code
print.ROTS Man page
pvalue Source code
spikedgene Man page
summary.ROTS Man page
upsSpikeIn Man page

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/ROTS.R
R/RcppExports.R
R/biggerN.R
R/bootstrapSamples.R
R/calculateFDR.R
R/calculateOverlaps1.R
R/calculateOverlaps2.R
R/calculateP.R
R/permutatedSamples.R
R/plot.ROTS.R
R/print.ROTS.R
R/summary.ROTS.R
R/testStatistic.R
build
build/vignette.rds
data
data/affySpikeIn.RData
data/upsSpikeIn.RData
inst
inst/doc
inst/doc/ROTS.R
inst/doc/ROTS.Rnw
inst/doc/ROTS.pdf
man
man/ROTS.Rd
man/affySpikeIn.Rd
man/plot.ROTS.Rd
man/summary.ROTS.Rd
man/upsSpikeIn.Rd
src
src/NeedForSpeed1.cpp
src/NeedForSpeed2.cpp
src/RcppExports.cpp
src/pvalue.cpp
tests
tests/test-all.R
tests/testthat
tests/testthat/test_ROTS.R
tests/testthat/test_biggerN.R
tests/testthat/test_bootstrap.R
tests/testthat/test_calculateFDR.R
tests/testthat/test_calculateP.R
tests/testthat/test_permutation.R
tests/testthat/test_testStatistic.R
vignettes
vignettes/ROTS.Rnw
ROTS documentation built on May 20, 2017, 10:28 p.m.