plotCorrelation: Plot correlations

In mariavica/mircomb: An R package for analyzing miRNA-mRNA interactions

Description

Plot the correlation of a miRNA and mRNA with their linear regression

Usage

plotCorrelation(obj, miRNA, mRNA, type = "cor", samples = "all",
  col.color = 1, i.legend = !is.na(col.color), pos.legend = "topright",
  sample.names = FALSE, pos.sample.names = 1, cex.main = 1.35,
  alternative = "two.sided", colors = c("turquoise", "violet"))

Arguments

obj	corObject
miRNA	character, miRNA selected
mRNA	character, mRNA selected
type	"cor" or "residuals"
samples	colunm name of the pheno.miRNA where to look for the grouping factor. The column must contain character names.
col.color	name of the column in the pheno slot used for coloring the samples.
i.legend	TRUE or FALSE. Plot legend
pos.legend	set the legend position from legend ‘"bottomright"’, ‘"bottom"’, ‘"bottomleft"’, ‘"left"’, ‘"topleft"’, ‘"top"’, ‘"topright"’, ‘"right"’ and ‘"center"’.
sample.names	TRUE or FALSE. Plot text of sample names.
pos.sample.names	Position of the text for sample names from text. Values of ‘1’, ‘2’, ‘3’ and ‘4’, respectively indicate positions below, to the left of, above and to the right of the specified coordinates.
cex.main	cex parameter for the main title.
alternative	alternative hypotheses used for computing the p value of the correlation. One of "two.sided", "less","greater".
colors	In case of a two-level factor grouping, colors to be used.

Value

A scatter plot showing the correlation of the miRNA and mRNA expression of a miRNA-mRNA pair. A line representing the linear regression between both variables is also plotted.

Examples

data(data.obj)
plotCorrelation(data.obj, miRNA="hsa-miR-107", mRNA="ACPP",
 type="cor", col.color="group", sample.names=TRUE)
plotCorrelation(data.obj, miRNA="hsa-miR-107", mRNA="ACPP",
 type="residuals")

mariavica/mircomb documentation built on Feb. 3, 2020, 2:28 a.m.