anota: ANalysis Of Translational Activity (ANOTA).
Version 1.24.0

Genome wide studies of translational control is emerging as a tool to study verious biological conditions. The output from such analysis is both the mRNA level (e.g. cytosolic mRNA level) and the levl of mRNA actively involved in translation (the actively translating mRNA level) for each mRNA. The standard analysis of such data strives towards identifying differential translational between two or more sample classes - i.e. differences in actively translated mRNA levels that are independent of underlying differences in cytosolic mRNA levels. This package allows for such analysis using partial variances and the random variance model. As 10s of thousands of mRNAs are analyzed in parallell the library performs a number of tests to assure that the data set is suitable for such analysis.

AuthorOla Larsson <ola.larsson@ki.se>, Nahum Sonenberg <nahum.sonenberg@mcgill.ca>, Robert Nadon <robert.nadon@mcgill.ca>
Bioconductor views DifferentialExpression GeneExpression Microarray Sequencing
Date of publicationNone
MaintainerOla Larsson <ola.larsson@ki.se>
LicenseGPL-3
Version1.24.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("anota")

Popular man pages

anotaDataSet: Sample data set for anota
anotaGetSigGenes: Identify genes that are under translational control...
anotaPerformQc: Perform quality control to ensure that the supplied data set...
anotaPlotSigGenes: Filter and plot genes to visualize/summarize genes that are...
anotaResidOutlierTest: Test for normality of residuals
See all...

All man pages Function index File listing

Man pages

anotaDataSet: Sample data set for anota
anotaGetSigGenes: Identify genes that are under translational control...
anotaPerformQc: Perform quality control to ensure that the supplied data set...
anotaPlotSigGenes: Filter and plot genes to visualize/summarize genes that are...
anotaResidOutlierTest: Test for normality of residuals

Functions

anotaAdjustPvals Source code
anotaAdjustPvalsQ Source code
anotaDataP Man page
anotaDataSet Man page
anotaDataT Man page
anotaDfbsSummaryFull Source code
anotaDfbsSummaryOnly Source code
anotaGetIntercepts Source code
anotaGetSigGenes Man page Source code
anotaGetab Source code
anotaPerformQc Man page Source code
anotaPerformQcWarnings1 Source code
anotaPerformQcWarnings2 Source code
anotaPerformRVM Source code
anotaPhenoVec Man page
anotaPlotIGFit Source code
anotaPlotIntPvals Source code
anotaPlotSigGenes Man page Source code
anotaPlotSingleRegression Source code
anotaResidOutlierPlot Source code
anotaResidOutlierPlotAll Source code
anotaResidOutlierTest Man page Source code
anotaSimDfbs Source code
anotaSlopeTest Source code
getSummaryDfb Source code

Files

DESCRIPTION
NAMESPACE
R
R/anotaDfbetas.R
R/anotaDiffExp.R
R/anotaQc.R
R/anotaResids.R
build
build/vignette.rds
data
data/anotaDataSet.RData
inst
inst/NEWS
inst/doc
inst/doc/anota.R
inst/doc/anota.Rnw
inst/doc/anota.pdf
man
man/anotaDataSet.Rd
man/anotaGetSigGenes.Rd
man/anotaPerformQc.Rd
man/anotaPlotSigGenes.Rd
man/anotaResidOutlierTest.Rd
vignettes
vignettes/anota.Rnw
vignettes/fig
vignettes/fig/anotaPlotSigOut.pdf
vignettes/fig/dfbs.pdf
vignettes/fig/int.pdf
vignettes/fig/resid.jpg
vignettes/fig/residSingle.pdf
vignettes/fig/rvm.jpg
vignettes/fig/singleReg.pdf
anota documentation built on May 20, 2017, 9:43 p.m.

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