PlotVolcano: Create volcano plot

In xia-lab/MetaboAnalystR: An R Package for Comprehensive Analysis of Metabolomics Data

Create volcano plot

Description

For labelling interesting points, it is defined by the following rules: need to be signficant (sig.inx) and or 2. top 5 p, or 2. top 5 left, or 3. top 5 right.

Usage

PlotVolcano(mSetObj=NA, imgName, plotLbl, plotTheme, format="png", dpi=72, width=NA)

Arguments

mSetObj	Input the name of the created mSetObj (see InitDataObjects)
imgName	Input a name for the plot
plotLbl	Logical, plot labels, 1 for yes and 0 for no.
plotTheme	plotTheme, numeric, canbe 0, 1 or 2
format	Select the image format, "png", or "pdf".
dpi	Input the dpi. If the image format is "pdf", users need not define the dpi. For "png" images, the default dpi is 72. It is suggested that for high-resolution images, select a dpi of 300.
width	Input the width, there are 2 default widths, the first, width = NULL, is 10.5. The second default is width = 0, where the width is 7.2. Otherwise users can input their own width.

Author(s)

Jeff [e-mail] McGill University, Canada License: GNU GPL (>= 2)

xia-lab/MetaboAnalystR documentation built on Dec. 23, 2024, 3:44 p.m.