AVplot: A function plotting average intensity versus variance

Description Usage Arguments Details Value Author(s) References Examples

Description

A function plotting average intensity versus variance

Usage

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AVplot(data, avg = "mean", w.value = 0.1, logged = TRUE)

Arguments

data

expression data matrix

avg

measure for average value across the columns of the data matrix (default "mean")

w.value

parameter for lowess weight value (default 0.1)

logged

logical variable indicating log tranformation (default True)

Details

Average versus variance plot of the data can provide a simple characteristics of the data. The larger variance, the higher variability.

Value

plot

average-variance plot

Author(s)

Jungsoo Gim

References

J. Gim and T. Park, PLoS ONE under revision (http://bibs.snu.ac.kr/software/LPEseq)

Examples

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## Generating a replicated simulation dataset
data("NBparameter")
simData <- generateData(n.deg=1000)

## Normalization
normData <- generateData(simData[,-7])

## MA transformation
AVplot(normData[,1:3])

iedenkim/LPEseq documentation built on May 27, 2019, 7:26 a.m.