R: Plot correlations

plotCorrelation {psichomics}

R Documentation

Plot correlations

Description

Plot correlation results from correlateGEandAS

Usage

plotCorrelation(corr, autoZoom = FALSE, loessSmooth = TRUE,
  loessFamily = c("gaussian", "symmetric"), colour = "black", alpha = 0.2,
  size = 1.5, loessColour = "red", loessAlpha = 1, loessWidth = 0.5,
  ...)

Arguments

`corr`	List of correlations
`autoZoom`	Boolean: automatically set the range of PSI values based on available data? If `FALSE`, the axis relative to PSI values will range from 0 to 1
`loessSmooth`	Boolean: plot a smooth curve computed by `stats::loess.smooth`?
`loessFamily`	Character: if `gaussian`, `loess` fitting is by least-squares, and if `symmetric`, a re-descending M estimator is used
`colour`	Character: points' colour
`alpha`	Numeric: points' alpha
`size`	Numeric: points' size
`loessColour`	Character: loess line's colour
`loessAlpha`	Numeric: loess line's opacity
`loessWidth`	Numeric: loess line's width
`...`	Arguments passed on to `stats::loess.smooth` span smoothness parameter for `loess`. degree degree of local polynomial used. evaluation number of points at which to evaluate the smooth curve.

Value

Renders plots for each correlation in corr

Examples

annot <- readFile("ex_splicing_annotation.RDS")
junctionQuant <- readFile("ex_junctionQuant.RDS")
psi <- quantifySplicing(annot, junctionQuant, eventType=c("SE", "MXE"))

geneExpr <- readFile("ex_gene_expression.RDS")
corr <- correlateGEandAS(geneExpr, psi, "ALDOA")
plotCorrelation(corr)

[Package psichomics version 1.4.5 Index]