Creates an ordination plot of the beta diversity of the samples in the tidytacos object. This can be used to gauge the similarity between samples.
Usage
tacoplot_ord(
ta,
x = NULL,
palette = NULL,
ord = "pcoa",
distance = "bray",
stat.method = NULL,
title = NULL,
...
)Arguments
- ta
A tidytacos object.
- x
The column name used to color the sample groups on.
- palette
A vector of colors, used as the palette for coloring sample groups.
- ord
the ordination technique to use. Choice from pcoa, tsne and umap.
- distance
the distance algorithm to use, see
vegan::vegdist().- stat.method
the statistic to print on the figure, choice from mantel and anosim.
- title
a string to display as title of the plot.
- ...
Extra arguments to pass to the add_ord function.
Examples
tacoplot_ord(urt, x = location)
#> Warning: Removed 3 empty samples.
# set plate to character, to avoid it being treated as a continuous variable
urt <- urt %>% mutate_samples(plate = as.character(plate))
tacoplot_ord(urt, x = plate, ord = "umap", distance = "aitchison", stat.method = "permanova")
#> Warning: Removed 3 empty samples.
