manta (version 1.18.0)

compbiasPlot: plot the compositional bias for the sub-taxinomic rank

Description

.

Usage

compbiasPlot(x, pair=nv(levels(x$samples$group)[1:2] , c('ref','obs')), meta.lev='phylum',  meta.lev.lim=nrow(x$meta.sum[[meta.lev]]), breaks=10, xlim=c(0,.5), type='box', col=NULL, ...)

Arguments

x

a MANTA object.

pair

named vector of the pair of conditions of interest

meta.lev

the taxinomic rank to plot.

meta.lev.lim

the taxinomic rank for diversity measure.

breaks

breaks for the histogram.

xlim

x axis limits.

type

type of plot.

col

colors

...

additional params.

Value

a compositional bias plot

See Also

DGEList, manta

Examples

manta.path <- system.file("extdata","PapaGO-BLAST.results-diatoms.Rdata", package="manta")
load(manta.path)
			
compbiasPlot(x, meta.lev='genus_sp')