Function to do mlr normalization for a matrix group

Description

Do mlr normalization separately for each set of replicates first, then normalize the resulting matrix

Usage

mlrGroup(mat, Group)

Arguments

Value

Resulting normalized matrix of the same size as the initial one

References

*Find reference to mlr paper*

See Also

mlrrep, mlr

Examples

res = mlrGroup(iris[,-5], Group=as.factor(c("Sepal", "Sepal", "Petal", "Petal")))

layout(matrix(1:3, nrow=1))
boxplot(log(iris[,-5]), main="Log only")
boxplot(log(medianNorm(iris[,-5])), main="Median")
boxplot(log(res[[1]]), main="MLR")

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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Platform: x86_64-pc-linux-gnu (64-bit)

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> library(SwathXtend)
Loading required package: e1071
Loading required package: openxlsx
Loading required package: VennDiagram
Loading required package: grid
Loading required package: futile.logger
Loading required package: lattice
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/SwathXtend/mlrGroup.Rd_%03d_medium.png", width=480, height=480)
> ### Name: mlrGroup
> ### Title: Function to do mlr normalization for a matrix group
> ### Aliases: mlrGroup
> 
> ### ** Examples
> 
> 
> res = mlrGroup(iris[,-5], Group=as.factor(c("Sepal", "Sepal", "Petal", "Petal")))
> 
> layout(matrix(1:3, nrow=1))
> boxplot(log(iris[,-5]), main="Log only")
> boxplot(log(medianNorm(iris[,-5])), main="Median")
> boxplot(log(res[[1]]), main="MLR")
> 
> 
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>