DA_ancombc

DA_ancombc is an adaptation of the ancombc function for integration in the benchdamic framework.

DA_ancombc(
  object,
  pseudo_count = FALSE,
  norm = "none",
  conditions,
  verbose = TRUE,
  group,
  formula,
  ...
)

Arguments

object: A phyloseq object.
pseudo_count: Logical. Whether inlucde a pseudocount of 1 or not. Default is FALSE.
norm: Character string indicating the normalization to use. Options: 'none' and 'TSS'. Default is 'none'.
conditions: A named character vector of length 2 indicating the names of the conditions to be compared. The names must be 'condB' for the reference and 'condA' for the target, in that order. For example: c(condB = 'control', condA = 'treatment').
verbose: Logical. If TRUE messages at each step are printed on screen. Default is FALSE.
group: Name of column with conditions/group information. Same argument as in ancombc. Check the original function for more information.
formula: Name of column with conditions/group information. Same argument as in ancombc. Check the original function for more information.
...: Parameters passed to the ancombc function.

A list with results of the analysis ready to be integrated in the benchadmic framework.