nem_plot-beta-method: Visualization of beta diversity results (single factor)

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Visualization of beta diversity results (single factor)

Description

The nem_plot function is generalized to the beta-class and is used to visualize the single-factor beta diversity results.

Usage

## S4 method for signature 'beta'
nem_plot(object, level = 0.6, type = 1, ...)

Arguments

object	A beta-class object.
level	Used to adjust the size of the confidence ellipse. Default level = 0.6. See stat_ellipse.
type	Method used to adjust the display of scatter area. type = 1, displays as a confidence ellipse; type = 2, displays as a polygon. Default type = 1.
...	Other parameters to be expanded.

Details

To facilitate code interpretation, it is recommended to use the pipe symbol |> to connect functions:

nem_plot <- nem |> calc_beta(pca, Treatments, method = "bray") |> nem_plot()

Value

An gg or ggplot object.

See Also

The nem_plot() is used to visualize the calculation results and is a generalized function for multiple classes including beta-class, beta2-class, compare-class, compare2-class, ef-class, ef2-class, funguild-class, funguild2-class, mf-class, mf2-class, ter-class, ter2-class, etc.

Examples

nem <- read_nem2(tab = nemtab, tax = nemtax, meta = nemmeta)
nem_plot <- nem |>
            calc_beta(pcoa, Treatments, method = "bray") |>
            nem_plot(level = 0)
nem_plot
nem_plot <- nem |>
            calc_beta(nmds, Treatments, method = "bray") |>
            nem_plot(type = 2)
nem_plot

easynem documentation built on Nov. 5, 2025, 7:39 p.m.