scatterMixPlot {oncomix} | R Documentation

## Generate a scatter plot with the output from mixModelParams

### Description

This function allows you to generate the parameters for two 2-component mixture models with equal variances

### Usage

    scatterMixPlot(mmParams, selIndThresh = 1, geneLabels = NULL)

### Arguments

`mmParams` | The output from the mixModelParams function. Will utilize the deltaMu2 and deltaMu1 rows.
`selIndThresh` | This is the selectivity index threshold to use. All genes with SI values above this threshold will be highlighted in purple. Specify either selIndThresh or geneLabels (not both simultaneously).
`geneLabels` | A character vector of gene names used to label the genes with that name on the scatter plot. Specify either selIndThresh or geneLabels (not both simultaneously).

### Value

Returns a ggplot scatter object that can be plotted

### See Also

`mixModelParams`

### Examples

    exprNml <- as.data.frame(matrix(data=rgamma(n=150, shape=2, rate=2),
    nrow=10, ncol=15))
    colnames(exprNml) <- paste0("patientN", seq_len(ncol(exprNml)))
    rownames(exprNml) <- paste0("gene", seq_len(nrow(exprNml)))

    exprTum <- as.data.frame(matrix(data=rgamma(n=150, shape=4, rate=3),
    nrow=10, ncol=15))
    colnames(exprTum) <- paste0("patientT", seq_len(ncol(exprTum)))
    rownames(exprTum) <- paste0("gene", seq_len(nrow(exprTum)))

    mmParams <- mixModelParams(exprNml, exprTum)
    scatterMixPlot(mmParams)

[Package oncomix version 1.10.0 Index]