boxplot_biom: Make a boxplot of significant OTUs found with my_deseq2

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

Description

Make a boxplot of significant OTUs found with my_deseq2

Usage

boxplot_biom(biom, taxlevel, condition, results, title = NULL,
  glom = TRUE, printSig = TRUE, cex = 2, colors = "white",
  show_points = TRUE, pointColors = NULL, pointShapes = NULL,
  minPer = 10, log = FALSE)

Arguments

biom	a phyloseq object.
taxlevel	string giving taxonomic level (from tax_table) to plot at.
condition	string giving column in sample data to compare
results	tibble returned from my_deseq2
glom	run tax_glom on biom to get to desired level (FALSE if already at right level)
printSig	print p-values on plot
cex	font size
colors	optional vector of colors

Examples

boxplot_biom()

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