generate_scrambled_data: Permute the data within samples, maintaining relative...

In kimberlyroche/rulesoflife:

Permute the data within samples, maintaining relative abundances but scrambling patterns of variation within taxa

Description

Permute the data within samples, maintaining relative abundances but scrambling patterns of variation within taxa

Usage

generate_scrambled_data(
  tax_level = "ASV",
  host_sample_min = 75,
  count_threshold = 1,
  sample_threshold = 0.2
)

Arguments

tax_level	taxonomic level at which to agglomerate data
host_sample_min	minimum sample number for host inclusion in the filtered data set
count_threshold	minimum count for taxon inclusion in the filtered data set
sample_threshold	minimum proportion of samples within each host at which a taxon must be observed at or above count_threshold

Value

a named list of count table, taxonomy, and metadata components

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