plot_CM {TFEA.ChIP} | R Documentation

## Makes an interactive html plot from an enrichment table.

### Description

Function to generate an interactive html plot from a transcription factor enrichment table, output of the function 'getCMstats'.

### Usage

    plot_CM(CM.statMatrix, plot_title = NULL, specialTF = NULL, TF_colors = NULL)

### Arguments

`CM.statMatrix` | Output of the function 'getCMstats'. A data frame storing: Accession ID of every ChIP-Seq tested, Transcription Factor,Odds Ratio, p-value and adjusted p-value.
`plot_title` | The title for the plot.
`specialTF` | (Optional) Named vector of TF symbols -as written in the enrichment table- to be highlighted in the plot. The name of each element of the vector specifies its color group, i.e.: naming elements HIF1A and HIF1B as 'HIF' to represent them with the same color.
`TF_colors` | (Optional) Nolors to highlight TFs chosen in specialTF.

### Value

plotly scatter plot.

### Examples

    data('Genes.Upreg',package = 'TFEA.ChIP')
    CM_list_UP <- contingency_matrix( Genes.Upreg )
    stats_mat_UP <- getCMstats( CM_list_UP )
    plot_CM( stats_mat_UP )

[Package TFEA.ChIP version 1.12.0 Index]