miniCofactorReport: Produces a cofactorReport

In rtmag/FPWM: Creation of Forked-Position Weight Matrices, a graph model of multiple PWMs.

Description

This function allows you to get a PDF report of top cofactors along with DNA methylation for a TF.

Usage

miniCofactorReport(
  TF,
  cell,
  cobinding_threshold = 0.05,
  Methylation = TRUE,
  includeMotifOnly = TRUE,
  height = 12,
  width = 7,
  pdfName = NULL
)

Arguments

TF	Main TF of interest.
cell	Cell .
cobinding_threshold	Only the co-factors with co-binding percentages more than this threshold value will be reported. By default the threshold is 0.05.
Methylation	Logical, TRUE to retrieve Cytosine methylation information.
includeMotifOnly	Logical, TRUE if you wish to include only peaks that contain the known binding motif.
height	Height in inch for the plot.
width	Width in inch for the plot.
pdfName	Name of the pdf to be saved.

Value

A PDF file with the cofactorReport.

Examples

miniCofactorReport(TF = "CEBPB",cell = "K562")

rtmag/FPWM documentation built on March 23, 2020, 12:46 a.m.