pcaPlot: Visualize sample relationships
In diffloop: Identifying differential DNA loops from chromatin topology data
Description
Usage
Arguments
Details
Value
Examples
Description
pcaPlot takes a loops object plots the individual samples
based on the principal components of the loop counts matrix
Usage
1
2
3
4
Arguments
dlo
A loops object
Details
Groups for the principal component plots are derived from colData
and the normalizing factors are also taken from colData. While some
loops objects may have non-informative groups or size factors, they
should always be present.
Value
A ggplot2 plot
Examples
1
2
3
rda<-paste(system.file('rda',package='diffloop'),'loops.small.rda',sep='/')
load(rda)
p1 <- pcaPlot(loops.small)
diffloop documentation built on Nov. 8, 2020, 5:48 p.m.
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Description Usage Arguments Details Value Examples
Description
pcaPlot takes a loops object plots the individual samples
based on the principal components of the loop counts matrix
Usage
1 2 3 4 |
Arguments
dlo |
A loops object |
Details
Groups for the principal component plots are derived from colData
and the normalizing factors are also taken from colData. While some
loops objects may have non-informative groups or size factors, they
should always be present.
Value
A ggplot2 plot
Examples
1 2 3 | rda<-paste(system.file('rda',package='diffloop'),'loops.small.rda',sep='/')
load(rda)
p1 <- pcaPlot(loops.small)
|
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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