shannonDivergence: shannon divergence

Description Usage Arguments Value Author(s) Examples

View source: R/stackHeights.R

Description

the shannon divergence for the given pair of probability vectors

Usage

1

Arguments

p1

probability vector representing the first symbol distribution

p2

probability vector representing the second symbol distribution

Value

an object consisting of height and ylab

Author(s)

Martin Nettling

Examples

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motif_folder= "extdata/pwm"
motif_names = c("HepG2","MCF7","HUVEC","ProgFib")
motifs = list()
for (name in motif_names) {
  fileName = paste(motif_folder,"/",name,".pwm",sep="")
  file = system.file(fileName, package = "DiffLogo")
  motifs[[name]] = getPwmFromPwmFile(file)
}

pwm1 = motifs[[motif_names[[1]]]]
pwm2 = motifs[[motif_names[[2]]]]

diffLogoFromPwm(pwm1 = pwm1, pwm2 = pwm2, stackHeight = shannonDivergence)

DiffLogo documentation built on Nov. 1, 2018, 2:24 a.m.