plot_aligned_trajectories: Render date-aligned trajectories for a pair of taxa and a...

In kimberlyroche/rulesoflife:

Render date-aligned trajectories for a pair of taxa and a given set of hosts. This allows us to eyeball whether taxa strongly correlated within hosts show similar dynamics across hosts.

Description

Render date-aligned trajectories for a pair of taxa and a given set of hosts. This allows us to eyeball whether taxa strongly correlated within hosts show similar dynamics across hosts.

Usage

plot_aligned_trajectories(
  output_dir,
  tax_idx1,
  tax_idx2,
  tax_label1,
  tax_label2,
  metadata,
  bind_taxa = FALSE,
  return_plot = FALSE,
  file_tag = NULL
)

Arguments

output_dir	specifies the subdirectory of the model fits directory in which to save the predictions
tax_idx1	index of first taxon
tax_idx2	index of second taxon
tax_label1	readable label for first taxon
tax_label2	readable label for second taxon
metadata	metadata data.frame (with sname and collection_date column)
bind_taxa	plot all trajectories for taxon 1 together; ditto taxon 2
return_plot	if TRUE, returns the ggplot2 object instead of saving it
file_tag	if not NULL, a tag to append to the saved filename

kimberlyroche/rulesoflife documentation built on May 7, 2023, 11:08 a.m.