plot_cvmperms: Plot histogram of CVM scores calculated via random...
In schmolze/EMDomics-devel: Earth Mover's Distance for Differential Analysis of Genomics Data
Description
Usage
Arguments
Value
See Also
Examples
Description
The permuted CVM scores stored in cvmobj$cvm.perm are
plotted as a histogram.
Usage
1
plot_cvmperms(cvmobj)
Arguments
cvmobj
An CVMomics object, typically returned via a call
to calculate_cvm.
Value
A ggplot object is returned. If the value is
not assigned, a plot will be drawn.
See Also
Examples
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# 100 genes, 100 samples
dat <- matrix(rnorm(10000), nrow=100, ncol=100)
rownames(dat) <- paste("gene", 1:100, sep="")
colnames(dat) <- paste("sample", 1:100, sep="")
# "A": first 50 samples; "B": next 30 samples; "C": final 20 samples
outcomes <- c(rep("A",50), rep("B",30), rep("C",20))
names(outcomes) <- colnames(dat)
results <- calculate_cvm(dat, outcomes, nperm=10, parallel=FALSE)
plot_cvmperms(results)
schmolze/EMDomics-devel documentation built on May 29, 2019, 3:42 p.m.
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Description Usage Arguments Value See Also Examples
Description
The permuted CVM scores stored in cvmobj$cvm.perm are
plotted as a histogram.
Usage
1 | plot_cvmperms(cvmobj)
|
Arguments
cvmobj |
An |
Value
A ggplot object is returned. If the value is
not assigned, a plot will be drawn.
See Also
Examples
1 2 3 4 5 6 7 8 9 10 11 | # 100 genes, 100 samples
dat <- matrix(rnorm(10000), nrow=100, ncol=100)
rownames(dat) <- paste("gene", 1:100, sep="")
colnames(dat) <- paste("sample", 1:100, sep="")
# "A": first 50 samples; "B": next 30 samples; "C": final 20 samples
outcomes <- c(rep("A",50), rep("B",30), rep("C",20))
names(outcomes) <- colnames(dat)
results <- calculate_cvm(dat, outcomes, nperm=10, parallel=FALSE)
plot_cvmperms(results)
|
R Package Documentation
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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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