get_universal_interactions: Identify and plot "universal" interactions at the designated...

In kimberlyroche/ROL: What the package does (short line)

Description

Identify and plot "universal" interactions at the designated taxonomic level

Usage

get_universal_interactions(
  tax_level = "ASV",
  show_plot = FALSE,
  order_by = "abundance"
)

Arguments

tax_level	taxonomic level at which to agglomerate data
show_plot	show() plot in addition to rendering it to a file
order_by	ordering of bigraph components; options are "abundance" or "taxonomy"

Details

Correlations are evaluated in the CLR. A threshold of 0.4 will identify pairs of taxa with median correlation of > 0.4 or < -0.4. Pairs are rendered as bigraphs.

Value

data.frame of microbial pairs (by index in taxonomy and label) and median correlation across hosts

Examples

interaction_matrix <- get_universal_interactions(tax_level="ASV")

kimberlyroche/ROL documentation built on Dec. 10, 2020, 2:18 a.m.