plotCircos: Circos plot
In mariavica/mircomb: An R package for analyzing miRNA-mRNA interactions
Description
Usage
Arguments
Value
References
See Also
Examples
Description
Plot a circos plot showing the miRNA-mRNA interactions
Usage
1
2
Arguments
obj
a corObject whith a net slot already definded
pval.cutoff
maximum corrected p value of the selected miRNA-mRNA pairs
dat.sum
numeric, minimum concordance across databases of the selected miRNA-mRNA pairs
n
(optional) numeric. If specified, limit to the first "n" pairs (sorted by corrected p value)
sub.miRNA
(optional) character vector, include only pairs containing these miRNAs.
sub.mRNA
(optional) character vector, include only pairs containing these mRNAs.
Value
a plot
References
www.circos.ca : Krzywinski MI, Schein JE, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA. Circos: An information aesthetic for comparative genomics. Genome Research, 2009.
http://cran.r-project.org/web/packages/circlize/index.html
See Also
genes_human_h37, mirnas_human_17_h37
Examples
1
2
data(data.obj)
plotCircos(data.obj, n="50")
mariavica/mircomb documentation built on Feb. 3, 2020, 2:28 a.m.
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Description Usage Arguments Value References See Also Examples
Description
Plot a circos plot showing the miRNA-mRNA interactions
Usage
1 2 |
Arguments
obj |
a corObject whith a net slot already definded |
pval.cutoff |
maximum corrected p value of the selected miRNA-mRNA pairs |
dat.sum |
numeric, minimum concordance across databases of the selected miRNA-mRNA pairs |
n |
(optional) numeric. If specified, limit to the first "n" pairs (sorted by corrected p value) |
sub.miRNA |
(optional) character vector, include only pairs containing these miRNAs. |
sub.mRNA |
(optional) character vector, include only pairs containing these mRNAs. |
Value
a plot
References
www.circos.ca : Krzywinski MI, Schein JE, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA. Circos: An information aesthetic for comparative genomics. Genome Research, 2009.
http://cran.r-project.org/web/packages/circlize/index.html
See Also
genes_human_h37, mirnas_human_17_h37
Examples
1 2 | data(data.obj)
plotCircos(data.obj, n="50")
|
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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