plot_RES: Plots all the RES stored in a GSEA_run output.

In TFEA.ChIP: Analyze Transcription Factor Enrichment

Description

Function to plot all the RES stored in a GSEA_run output.

Usage

plot_RES(GSEA_result, LFC, plot_title = NULL, line.colors = NULL,
  line.styles = NULL, Accession = NULL, TF = NULL)

Arguments

GSEA_result	Returned by GSEA_run
LFC	Vector with log2(Fold Change) of every gene that has an Entrez ID. Arranged from higher to lower.
plot_title	(Optional) Title for the plot.
line.colors	(Optional) Vector of colors for each line.
line.styles	(Optional) Vector of line styles for each line ('solid'/'dash'/'longdash').
Accession	(Optional) restricts plot to the indicated list dataset IDs.
TF	(Optional) restricts plot to the indicated list transcription factor names.

Value

Plotly object with a line plot -running sums- and a heatmap -log2(fold change) bar-.

Examples

data('GSEA.result','log2.FC',package = 'TFEA.ChIP')
plot_RES(GSEA.result,log2.FC,TF=c('STAT1'),
    Accession=c('GSM2390642','wgEncodeEH002867'))

TFEA.ChIP documentation built on Nov. 8, 2020, 5:05 p.m.