plot_emdperms: Plot histogram of EMD 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 EMD scores stored in emdobj$emd.perm are
plotted as a histogram.
Usage
1
plot_emdperms(emdobj)
Arguments
emdobj
An EMDomics object, typically returned via a call
to calculate_emd.
Value
A ggplot object is returned. If the value is
not assigned, a plot will be drawn.
See Also
Examples
1
2
3
4
5
6
7
8
9
10
11
# 100 genes, 100 samples
dat <- matrix(rnorm(10000), nrow=100, ncol=100)
rownames(dat) <- paste("gene", 1:100, sep="")
colnames(dat) <- paste("sample", 1:100, sep="")
# "A": first 50 samples; "B": next 30 samples; "C": final 20 samples
outcomes <- c(rep("A",50), rep("B",30), rep("C",20))
names(outcomes) <- colnames(dat)
results <- calculate_emd(dat, outcomes, nperm=10, parallel=FALSE)
plot_emdperms(results)
schmolze/EMDomics-devel documentation built on May 29, 2019, 3:42 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Description Usage Arguments Value See Also Examples
Description
The permuted EMD scores stored in emdobj$emd.perm are
plotted as a histogram.
Usage
1 | plot_emdperms(emdobj)
|
Arguments
emdobj |
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_emd(dat, outcomes, nperm=10, parallel=FALSE)
plot_emdperms(results)
|
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.