PWMScanHeatmap: Generate a Heatmap of PWM Scores in DNA sequnce

In heatmaps: Flexible Heatmaps for Functional Genomics and Sequence Features

Description

Generate a Heatmap of PWM Scores in DNA sequnce

Usage

PWMScanHeatmap(seq, pwm, ...)

## S4 method for signature 'DNAStringSet,matrix'
PWMScanHeatmap(seq, pwm, coords = NULL,
  label = "")

Arguments

seq	A DNAString of equal length
pwm	A PWM
...	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
coords	Co-ordinates for the heatmap, defaults to c(0, width(windows))
label	Label for the heatmap

Value

A heatmap

Methods (by class)

• seq = DNAStringSet,pwm = matrix: Heatmap of PWM Scores

See Also

PatternHeatmap

Examples

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

Example output

Attaching package: 'heatmaps'

The following object is masked from 'package:base':

    scale

coords: -100 100 
nseq: 500 
obs: 100000 
scale: 0 1 
label: TATA Scan 

heatmaps documentation built on Nov. 8, 2020, 7:32 p.m.