plotPosOneAnnotLevInComp_ggplot {MineICA} | R Documentation

## Plots the position of a subset of samples in the histogram of all samples using `ggplot2`.

### Description

Given a sample annotation (e.g a tumor specific stage), this function plots the positions of the corresponding samples (e.g the subset of samples having this tumor stage) within the histogram of the global sample contributions. This function is called by `plotPosOneAnnotInComp_ggplot` and is only dedicated to the plot of the histogram using the package `ggplot2`.

### Usage

      plotPosOneAnnotLevInComp_ggplot(annot, colAnnot, selLev,
        comp, title = NULL, colSel = "red", colAll = "grey74",
        binwidth = 0.1, geneExpr = NULL, geneRef = NULL, ...)

### Arguments

`annot` | a data.frame of dimensions 'samples x annotations' with one column corresponding to the component to trait ("comp" column) and one column corresponding to the groups of interest ("interest" column)
`colAnnot` | the name of a column of the argument `annot` with the groups of interest
`selLev` | the name of the group of interest
`comp` | a vector of sample contributions
`colSel` | the colour of the histogram of the group of interest, default is "red"
`colAll` | the colour of the global histogram
`geneExpr` | a vector of values representative of the component, e.g the expression of the witness gene of the component
`geneRef` | the ID of the feature/gene `geneExpr` corresponds to, e.g the name of the witness gene
`title` | A title for the plot
`binwidth` | set the width of the bins, see `geom_histogram`
`...` | other parameters given to `geom_histogram`

### Value

An object of class ggplot2 containing the histogram

### Author(s)

Anne Biton

### See Also

`geom_histogram`

[Package MineICA version 1.24.0 Index]