plotMotifOverMotif: plot motif over another motif
In motifStack: Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
Description
Usage
Arguments
Value
Examples
View source: R/plotMotifOverMotif.R
Description
plot motif over another motif to emphesize the difference.
Usage
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plotMotifOverMotif(
motif,
backgroundMotif,
bgNoise = NA,
font = "Helvetica-Bold",
textgp = gpar()
)
Arguments
motif
an object of pcm or pfm
backgroundMotif
an object of pcm or pfm
bgNoise
if it is not NA, test will using a background by
Dirichlet(1)-distributed random frequencies with weight bg.noise. The value
of bgNoise should be a number in the range of 0 to 1, eg. 0.05
font
font for logo symbol
textgp
text parameter
Value
none
Examples
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pcms <- readPCM(file.path(find.package("motifStack"), "extdata"),"pcm$")
len <- sapply(pcms, function(.ele) ncol(.ele$mat))
pcms <- pcms[len==7]
plotMotifOverMotif(pcms[[1]], pcms[[2]], bgNoise=0.05)
motifStack documentation built on Nov. 8, 2020, 7:43 p.m.
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Description Usage Arguments Value Examples
View source: R/plotMotifOverMotif.R
Description
plot motif over another motif to emphesize the difference.
Usage
1 2 3 4 5 6 7 | plotMotifOverMotif(
motif,
backgroundMotif,
bgNoise = NA,
font = "Helvetica-Bold",
textgp = gpar()
)
|
Arguments
motif |
an object of |
backgroundMotif |
an object of |
bgNoise |
if it is not NA, test will using a background by Dirichlet(1)-distributed random frequencies with weight bg.noise. The value of bgNoise should be a number in the range of 0 to 1, eg. 0.05 |
font |
font for logo symbol |
textgp |
text parameter |
Value
none
Examples
1 2 3 4 | pcms <- readPCM(file.path(find.package("motifStack"), "extdata"),"pcm$")
len <- sapply(pcms, function(.ele) ncol(.ele$mat))
pcms <- pcms[len==7]
plotMotifOverMotif(pcms[[1]], pcms[[2]], bgNoise=0.05)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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