PFMatrix: Create PFMatrix object.

In mPloenzke/learnMotifs: Learn Nucleotide Motifs via Convolutions

Description

Reads in a JASPAR-formatted motif and outputs as a PFMatrix class. Slight modification of the original function available in the TFBSTools package (https://github.com/ge11232002/TFBSTools).

Usage

PFMatrix(ID = "Unknown", name = "Unknown", matrixClass = "Unknown",
  strand = "+", bg = c(A = 0.25, C = 0.25, G = 0.25, T = 0.25),
  tags = list(), profileMatrix = matrix())

Arguments

ID	Identifier
name	Motif name
matrixClass	Type
strand	Strand +/-
bg	Background probabilities
tags	Tags
profileMatrix	Current profileMatrix to update

Value

ProfileMatrix PFMatrix.

Author(s)

Matthew Ploenzke, [e-mail]

mPloenzke/learnMotifs documentation built on May 27, 2019, 11:55 a.m.