variancePartition: Quantify and interpret divers of variation in multilevel gene expression experiments

Quantify and interpret multiple sources of biological and technical variation in gene expression experiments. Uses linear mixed model to quantify variation in gene expression attributable to individual, tissue, time point, or technical variables.

AuthorGabriel E. Hoffman
Date of publicationNone
MaintainerGabriel E. Hoffman <gabriel.hoffman@mssm.edu>
LicenseGPL (>= 2)
Version1.4.2

View on Bioconductor

Functions

as.matrix Man page
as.matrix,varPartResults-method Man page
calcVarPart Man page
calcVarPart,lmerMod-method Man page
calcVarPart,lm-method Man page
canCorPairs Man page
colinearityScore Man page
ESS Man page
ESS,lmerMod-method Man page
extractVarPart Man page
fitExtractVarPartModel Man page
fitExtractVarPartModel,data.frame-method Man page
fitExtractVarPartModel,EList-method Man page
fitExtractVarPartModel,ExpressionSet-method Man page
fitExtractVarPartModel,matrix-method Man page
fitVarPartModel Man page
fitVarPartModel,data.frame-method Man page
fitVarPartModel,EList-method Man page
fitVarPartModel,ExpressionSet-method Man page
fitVarPartModel,matrix-method Man page
geneCounts Man page
geneExpr Man page
getVarianceComponents Man page
ggColorHue Man page
info Man page
plotCorrMatrix Man page
plotCorrStructure Man page
plotPercentBars Man page
plotStratify Man page
plotStratifyBy Man page
plotVarPart Man page
plotVarPart,data.frame-method Man page
plotVarPart,matrix-method Man page
plotVarPart,matrix-method Man page
plotVarPart,varPartResults-method Man page
plotVarPart,varPartResults-method Man page
residuals Man page
residuals,VarParFitList-method Man page
sortCols Man page
sortCols,data.frame-method Man page
sortCols,matrix-method Man page
sortCols,varPartResults-method Man page
varPartConfInf Man page
varPartData Man page

Files

variancePartition/DESCRIPTION
variancePartition/NAMESPACE
variancePartition/NEWS
variancePartition/R
variancePartition/R/ESS.R variancePartition/R/calcVarPart.R variancePartition/R/canCorPairs.R variancePartition/R/checkModelStatus.R variancePartition/R/confidenceIntervals.R variancePartition/R/extractVarPart.R variancePartition/R/fitModels.R variancePartition/R/fitVarTest.R variancePartition/R/heatmap.R variancePartition/R/misc.R variancePartition/R/plotCorrMatrix.R variancePartition/R/plotCorrStructure.R variancePartition/R/plotStratifyBy.R variancePartition/R/plots.R variancePartition/R/sortCols.R
variancePartition/TODO
variancePartition/build
variancePartition/build/vignette.rds
variancePartition/data
variancePartition/data/varPartData.rda
variancePartition/inst
variancePartition/inst/CITATION
variancePartition/inst/doc
variancePartition/inst/doc/additional_visualization.R
variancePartition/inst/doc/additional_visualization.Rnw
variancePartition/inst/doc/additional_visualization.pdf
variancePartition/inst/doc/variancePartition.R
variancePartition/inst/doc/variancePartition.Rnw
variancePartition/inst/doc/variancePartition.pdf
variancePartition/man
variancePartition/man/ESS-method.Rd variancePartition/man/as.matrix-varPartResults-method.Rd variancePartition/man/calcVarPart-method.Rd variancePartition/man/canCorPairs.Rd variancePartition/man/colinearityScore.Rd variancePartition/man/extractVarPart.Rd variancePartition/man/fitExtractVarPartModel-method.Rd variancePartition/man/fitVarPartModel-method.Rd variancePartition/man/getVarianceComponents.Rd variancePartition/man/ggColorHue.Rd variancePartition/man/plotCorrMatrix.Rd variancePartition/man/plotCorrStructure.Rd variancePartition/man/plotPercentBars.Rd variancePartition/man/plotStratify.Rd variancePartition/man/plotStratifyBy.Rd variancePartition/man/plotVarPart-method.Rd variancePartition/man/residuals-VarParFitList-method.Rd variancePartition/man/sortCols-method.Rd variancePartition/man/varPartConfInf.Rd variancePartition/man/varPartData.Rd
variancePartition/vignettes
variancePartition/vignettes/additional_visualization.Rnw
variancePartition/vignettes/library.bib
variancePartition/vignettes/variancePartition.Rnw

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

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