plot_cvmnull: Plot null distribution of permuted cvm scores vs. calculated...
In schmolze/EMDomics-devel: Earth Mover's Distance for Differential Analysis of Genomics Data
Description
Usage
Arguments
Value
See Also
Examples
Description
The median of the randomly permuted CVM scores (i.e. the null
distribution) is plotted on the x-axis, vs. the observed CVM scores on the
y-axis. The line y=x is superimposed.
Usage
1
plot_cvmnull(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
1
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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="")
# "group A" = first 50, "group B" = second 50
groups <- c(rep("A",50),rep("B",50))
names(groups) <- colnames(dat)
results <- calculate_cvm(dat, groups, nperm=10, parallel=FALSE)
plot_cvmnull(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 median of the randomly permuted CVM scores (i.e. the null
distribution) is plotted on the x-axis, vs. the observed CVM scores on the
y-axis. The line y=x is superimposed.
Usage
1 | plot_cvmnull(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="")
# "group A" = first 50, "group B" = second 50
groups <- c(rep("A",50),rep("B",50))
names(groups) <- colnames(dat)
results <- calculate_cvm(dat, groups, nperm=10, parallel=FALSE)
plot_cvmnull(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.
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