save_correlation_plots: Save Correlation Plots

In vallenderlab/MicrobiomeR: Analyze Microbiome Data

Description

This function saves correlation plots stored in a listlike object to an output folder.

Usage

save_correlation_plots(corr, format = "tiff", start_path = "output",
  ...)

Arguments

corr	A correlation plot list generated by correlation_plot or correlation_plots.
format	The format of the output image. Default: 'tiff'
start_path	The starting path of the output directory. Default: 'output'
...	An optional list of parameters to use in the output_dir function.

Details

This function creates an appropriate output directory, where it saves publication ready plots.

Value

An output directory that contains correlation plots.

See Also

output_dir

ggsave

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

Examples

## Not run: 
if(interactive()){
# This example uses data that are no longer available in the MicrobiomeR package,
# however, they can be easily generated with \code{\link{MicrobiomeR}{as_analyzed_silva}}.
library(MicrobiomeR)
analyzed_silva <- as_MicrobiomeR_format(MicrobiomeR::raw_silva_2, "analyzed_format")
corr_plot <- correlation_plot(analyzed_silva, primary_rank = "Class", secondary_rank = "Phylum")
# Save to \emph{./output/corr_plot} folder.
save_correlation_plots(corr_plot)
 }

## End(Not run)

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