quantro: A test for when to use quantile normalization
Version 1.10.0

A data-driven test for the assumptions of quantile normalization using raw data such as objects that inherit eSets (e.g. ExpressionSet, MethylSet). Group level information about each sample (such as Tumor / Normal status) must also be provided because the test assesses if there are global differences in the distributions between the user-defined groups.

AuthorStephanie Hicks and Rafael Irizarry
Bioconductor views Microarray MultipleComparison Normalization Preprocessing Sequencing
Date of publicationNone
MaintainerStephanie Hicks <shicks@jimmy.harvard.edu>
LicenseGPL (>=3)
Version1.10.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("quantro")

Getting started

README.md

Popular man pages

anova: Accessors for the 'anova' slot of a quantro object.
flowSorted: A subset of FlowSorted.DLPFC.450k data set
MSbetween: Accessors for the 'MSbetween' slot of a quantro object.
quantro-class: quantro
quantroStat: Accessors for the 'quantroStat' slot of a quantro object.
quantroStatPerm: Accessors for the 'quantroStatPerm' slot of a quantro object.
summary: Accessors for the 'summary' slot of a quantro object.
See all...

All man pages Function index File listing

Man pages

anova: Accessors for the 'anova' slot of a quantro object.
flowSorted: A subset of FlowSorted.DLPFC.450k data set
matboxplot: Box plots of columns in a matrix
matdensity: Density plots of columns in a matrix
MSbetween: Accessors for the 'MSbetween' slot of a quantro object.
MSwithin: Accessors for the 'MSwithin' slot of a quantro object.
quantro: quantro
quantro-class: quantro
quantroPlot: Plot results from 'quantro' function.
quantroPvalPerm: Accessors for the 'quantroPvalPerm' slot of a quantro object.
quantroStat: Accessors for the 'quantroStat' slot of a quantro object.
quantroStatPerm: Accessors for the 'quantroStatPerm' slot of a quantro object.
summary: Accessors for the 'summary' slot of a quantro object.

Functions

MSbetween Man page Man page
MSbetween,quantro-method Man page Man page
MSbetween.quantro Man page Source code
MSwithin Man page Man page
MSwithin,quantro-method Man page Man page
MSwithin.quantro Man page Source code
anova Man page Man page
anova,quantro-method Man page Man page
anova.quantro Man page Source code
flowSorted Man page
matboxplot Man page Source code
matdensity Man page Source code
quantro Man page Source code
quantro-class Man page
quantroPlot Man page Source code
quantroPvalPerm Man page Man page
quantroPvalPerm,quantro-method Man page Man page
quantroPvalPerm.quantro Man page Source code
quantroStat Man page Man page
quantroStat,quantro-method Man page Man page
quantroStat.quantro Man page Source code
quantroStatPerm Man page Man page
quantroStatPerm,quantro-method Man page Man page
quantroStatPerm.quantro Man page Source code
show Man page
summary Man page Man page
summary,quantro-method Man page Man page
summary.quantro Man page Source code

Files

DESCRIPTION
NAMESPACE
R
R/AllClasses.R
R/AllGenerics.R
R/flowSorted.R
R/methods.R
R/plots.R
README.md
build
build/vignette.rds
data
data/datalist
data/flowSorted.RData
inst
inst/CITATION
inst/NEWS
inst/doc
inst/doc/quantro-vignette.R
inst/doc/quantro-vignette.Rnw
inst/doc/quantro-vignette.pdf
inst/objectCreation.R
inst/unitTests
inst/unitTests/test_quantro.R
man
man/MSbetween.Rd
man/MSwithin.Rd
man/anova.Rd
man/flowSorted.Rd
man/matboxplot.Rd
man/matdensity.Rd
man/quantro-class.Rd
man/quantro.Rd
man/quantroPlot.Rd
man/quantroPvalPerm.Rd
man/quantroStat.Rd
man/quantroStatPerm.Rd
man/summary.Rd
tests
tests/runTests.R
vignettes
vignettes/library.bib
vignettes/quantro-vignette.Rnw
quantro documentation built on May 20, 2017, 10:04 p.m.

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