variancePartition (version 1.2.5)

Quantify and interpret divers of variation in multilevel gene expression experiments

Description

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.

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Version

1.2.5

License

GPL (>= 2)

Maintainer

Gabriel E Hoffman

Last Published

February 15th, 2017

Functions in variancePartition (1.2.5)

fitVarPartModel

Fit linear (mixed) model

ESS

Effective sample size

fitExtractVarPartModel

Fit linear (mixed) model, report variance fractions

plotCorrMatrix

extractVarPart

Extract variance statistics

getVarianceComponents

Extract variance terms

canCorPairs

ggColorHue

Default colors for ggplot

colinearityScore

Collinearity score

calcVarPart

Compute variance statistics

plotVarPart

Violin plot of variance fractions

plotCorrStructure

plotPercentBars

Bar plot of variance fractions

residuals,VarParFitList-method

Residuals from model fit

sortCols

Sort variance partition statistics

plotStratifyBy

varPartData

Simulation dataset for examples