mvTypePlot {DAPAR}R Documentation

Distribution of missing values with respect to intensity values

Description

This method plots a scatter plot which represents the distribution of missing values. The colors correspond to the different conditions (slot Label in in the dataset of class MSnSet). The x-axis represent the mean of intensity for one condition and one entity in the dataset (i. e. a protein) whereas the y-axis count the number of missing values for this entity and the considered condition. The data have been jittered for an easier vizualisation.

Usage

mvTypePlot(qData, labels, threshold = 0, type = "MV")

Arguments

qData

A dataframe that contains quantitative data.

labels

A vector of the conditions (labels) (one label per sample).

threshold

An integer for the intensity that delimits MNAR and MCAR missing values.

type

A string to indicate wether to show nb of mising values (MV) or nb of values (values)

Value

A scatter plot

Author(s)

Florence Combes, Samuel Wieczorek

Examples

require(DAPARdata)
data(Exp1_R25_pept)
qData <- Biobase::exprs(Exp1_R25_pept)
labels <- Biobase::pData(Exp1_R25_pept)[,"Label"]
mvTypePlot(qData, labels, threshold=0)

[Package DAPAR version 1.12.11 Index]