taxBarPlot: Visualize the amplicon data

In yjiakang/microVisu: Visualize the amplicon data

Visualize the amplicon data

Description

Visualize the amplicon data

Usage

taxBarPlot(otuTab, metaData, classToPlot, topNum, col, ...)

Arguments

otuTab	otu table of your sample
metaData	design file
classToPlot	which column you want to plot
topNum	top n taxa to plot
col	colour palette: including all the types of the "display.brewer.all()" in the RColorBrewer package
classToFacet	which class you want for facet, default none
legCol	column number of legend, default 2. If text is too long, suggestion is 1

Examples

otu_table_L2.txt <- system.file("extdata", "otu_table_L2.txt", package = "microVisu")
design.txt <- system.file("extdata", "design.txt", package = "microVisu")
taxBarPlot(otuTab = otu_table_L2.txt, metaData = design.txt,
classToPlot = "status", topNum = 10, col = "Set3", classToFacet = "knownseverity")

yjiakang/microVisu documentation built on July 19, 2023, 10:29 p.m.