plot_select_taxa.Rd
User specifed OTUs are plotted.
plot_select_taxa(x, select.taxa, variableA, palette, plot.type)
x |
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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") |
ggplot
object. This can be further modified using ggpubr.
Useful for instances where user is interested only in some OTUs. For example OTUs reported to be significantly diferent.
# 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) # }