anota: ANalysis Of Translational Activity (ANOTA).

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.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("anota")
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
Version1.22.0

View on Bioconductor

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

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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