| plot_select_taxa {microbiomeutilities} | R Documentation |
User specifed OTUs are plotted.
plot_select_taxa(x, select.taxa, variableA, palette, plot.type)
x |
|
select.taxa |
a character list of taxa to be plotted. eg. select.taxa <- c("OTU-370251", "OTU-311173", "OTU-341024"). |
variableA |
Variable of interested to be checked. This will also be used to color the plot. |
palette |
Any of the RColorBrewer plettes. |
plot.type |
Three optons c("stripchart", "boxplot", "violin") |
Useful for instances where user is interested only in some OTUs. For example OTUs reported to be significantly diferent.
ggplot object. This can be further modified using ggpubr.
## Not run:
# Example data
library(microbiome)
library(microbiomeutilities)
data("zackular2014")
p0 <- zackular2014
p0.f <- format_to_besthit(p0)
select.taxa <- c("OTU-d__denovo31:Dorea", "OTU-d__denovo24:Blautia")
p <- plot_select_taxa(p0.f, select.taxa, "DiseaseState", "Paired", plot.type = "stripchart")
print(p)
## End(Not run)