ordination_plots: Ordination Plots

Description Usage Arguments Value See Also

View source: R/ordination.R

Description

Generate plots for a list of ordination methods and distances.

Usage

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ordination_plots(obj, methods = c("PCoA", "NMDS"),
  distances = c("wunifrac", "unifrac", "bray"),
  color = "TreatmentGroup", select_otu_table = "otu_proportions")

Arguments

obj

An object to be converted to a metacoder object with create_taxmap.

methods

A list of ordination methods, Default: 'c("PCoA", "NMDS")'

distances

A list of distance methods, Default: 'c("wunifrac", "unifrac", "bray")'

color

Choose the group or factor of which colors will be mapped to, Default: 'TreatmentGroup'

select_otu_table

The data table to use in the observation data. Default: "otu_proportions"

Value

Returns a melted dataframe.

See Also

Other Visualizations: alpha_diversity_plot, correlation_data, correlation_plots, correlation_plot, heat_tree_parameters, heat_tree_plots, ordination_plot, plot_limits, save_alpha_diversity_plots, save_correlation_plots, save_heat_tree_plots, save_ordination_plots, save_stacked_barplots, stacked_barplots, stacked_barplot, top_coefficients_barplot


vallenderlab/MicrobiomeR documentation built on Aug. 30, 2019, 11:24 p.m.