plot_bar2: More flexible version of phyloseq's plot_bar

In jhbadger/cipphyloseq: Adds Additional Features (plots, DESeq2) to phyloseq

Description

More flexible version of phyloseq's plot_bar

Usage

plot_bar2(biom, fill = NULL, title = NULL, colors = NULL,
  minPercent = NULL, pickTaxa = NULL, excludeTaxa = NULL,
  border_color = "black", log = FALSE, ppm = FALSE, rbiom = FALSE,
  showPercents = NULL, nomisc = FALSE)

Arguments

biom	a phyloseq object.
fill	string giving taxonomic level (from tax_table) to plot at.
title	title of plot
colors	vector of color names to use
minPercent	optional limit to exclude low abundant taxa
pickTaxa	optional list of taxa to limit graph to.
excludeTaxa	optional list of taxa to exclude
border_color	border color of bars
log	log transform data
ppm	translate data into parts per million rather than percent
rbiom	return a phyloseq data object
showPercents	limit graph to c(min,max) percent

Examples

plot_bar2()

jhbadger/cipphyloseq documentation built on May 24, 2019, 2:04 a.m.