plotGroupedBars: Plot grouped bar plot of significant taxa at each rank of all...

In microresearcher/MicroVis: Microbiome Analysis and Visualization

Plot grouped bar plot of significant taxa at each rank of all groups

Description

Plot grouped bar plot of significant taxa at each rank of all groups

Usage

plotGroupedBars(
  dataset = NULL,
  abun_thresh = 0,
  plotSigs = T,
  ftlist = NULL,
  addfts = NULL,
  factor = NULL,
  stratify = FALSE,
  flattenFactors = FALSE,
  facet.x = FALSE,
  facet.y = FALSE,
  width = 12,
  alpha = 0.05,
  param = F,
  byrank = F
)

Arguments

dataset	MicroVis dataset. Defaults to the active dataset
abun_thresh	Abundance cutoff for what features to show. Defaults to 0 (no threshold)
plotSigs	Plot significant features only. Defaults to TRUE
ftlist	(Optional) List of specific features to plot
addfts	(Optional) Additional features to plot in addition to significant ones
factor	Factor to perform statistical analysis by. Defaults to the active factor
stratify	Stratify by another factor? Defaults to FALSE
flattenFactors	Whether to combine factors. Defaults to FALSE
facet.x	(Optional) Factor to stratify horizontally
facet.y	(Optional) Factor to stratify vertically
width	Width of the saved figure (in inches). Defaults to 12 inches
alpha	Significance threshold. Defaults to 0.05
param	Whether to perform parametrized or nonparametrized univariate analysis. Defaults to FALSE (nonparametrized)
byrank	Facet the plot by rank? Defaults to FALSE

Value

Grouped bar plot of significant features

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