matdensity {quantro} | R Documentation

## Density plots of columns in a matrix

### Description

Plots the density of the columns of a matrix

### Usage

    matdensity(object, groupFactor = NULL, type = "l", lty = 1,
      brewer.n = 8, brewer.name = "Dark2", ...)

### Arguments

`object` | object an object which is inherited from an `eSet` such as an `ExpressionSet` or `MethylSet` object. The `object` can also be a data frame or matrix with observations (e.g. probes or genes) on the rows and samples as the columns.
`groupFactor` | an optional factor variable representing which group each column in `object` belongs to. It is important that values in `groupFactor` be in the same order as the columns in `object`.
`type` | the type of lines to plot. Default type is line ("l").
`lty` | the line type. Default is the solid line.
`brewer.n` | the number of colors in the palette from the RColorBrewer package. Default is 8.
`brewer.name` | the name of the palette from the RColorBrewer package. Default is "Dark2".
`...` | other arguments that can be passed to the codematplot function.

### Value

A density plot for each column in `object`

### Examples

    library(minfi)
    data(flowSorted)
    p <- getBeta(flowSorted, offset = 100)
    pd <- pData(flowSorted)
    matdensity(object = p, groupFactor = pd$CellType, xlab = "beta values",
    ylab = "density")

[Package quantro version 1.20.0 Index]