compbiasPlot {manta} | R Documentation

## 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')

[Package manta version 1.26.0 Index]