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+% Generated by roxygen2: do not edit by hand

+% Please edit documentation in R/PWMScanHeatmap.R

+\docType{methods}

+\name{PWMScanHeatmap}

+\alias{PWMScanHeatmap}

+\alias{PWMScanHeatmap,DNAStringSet,matrix-method}

+\title{Generate a Heatmap of PWM Scores in DNA sequnce}

+\usage{

+PWMScanHeatmap(seq, pwm, ...)

+

+\S4method{PWMScanHeatmap}{DNAStringSet,matrix}(seq, pwm, coords = NULL,

+  label = "")

+}

+\arguments{

+\item{seq}{A DNAString of equal length}

+

+\item{pwm}{A PWM}

+

+\item{...}{additional arguments used by methods

+

+This function creates a heatmap where each point is the score of a PWM match

+starting from that position, which can visualise regions of enrichment or exclusion

+of certain motifs}

+

+\item{coords}{Co-ordinates for the heatmap, defaults to c(0, width(windows))}

+

+\item{label}{Label for the heatmap}

+}

+\value{

+A heatmap

+}

+\description{

+Generate a Heatmap of PWM Scores in DNA sequnce

+}

+\section{Methods (by class)}{

+\itemize{

+\item \code{seq = DNAStringSet,pwm = matrix}: Heatmap of PWM Scores

+}}

+

+\examples{

+data(HeatmapExamples)

+PatternHeatmap(string_set, tata_pwm, coords=c(-100, 100), label="TATA Scan")

+}

+\seealso{

+PatternHeatmap

+}