foldChange: Calculate Fold Change

In microresearcher/MicroVis: Microbiome Analysis and Visualization

Calculate Fold Change

Description

Calculate Fold Change

Usage

foldChange(
  dataset = NULL,
  factor = NULL,
  ref_group = NULL,
  comparison_groups = NULL,
  ranks = NULL,
  allRanks = F,
  pairSamples = F
)

Arguments

dataset	MicroVis dataset. Defaults to active dataset
factor	Factor along which to conduct beta-diversity analysis
ref_group	Reference group for fold change computation. This will be the denominator. User will be asked if none is specified
comparison_groups	Comparison group for fold change computation. This will be the numerator. User will be asked if none is specified
ranks	Ranks at which to calculate fold change of features
allRanks	If set to TRUE, will compute feature fold change at all ranks. Defaults to FALSE
pairSamples	Should fold change be calculated on paired samples instead of between the means of groups? Defaults to FALSE. This option is useful when you have 2 or more time points from the same patient or something similar

Value

Table with the fold change and log2(fold change) for the features

microresearcher/MicroVis documentation built on Feb. 8, 2024, 10:59 a.m.