tidyMicro (version 1.43)

beta_heatmap: Create heatmaps of the supplied dissimilarity matrices

Description

Create heatmaps of the supplied dissimilarity matrices ordered by supplied grouping variables

Usage

beta_heatmap(
  beta_div,
  micro_set,
  ...,
  low_grad,
  high_grad,
  main = NULL,
  xlab = NULL,
  ylab = NULL,
  subtitle = NULL,
  natural_order = TRUE,
  legend_title = "Dissimilarity"
)

Arguments

beta_div

A dissimilarity matrix calculated by beta_div

micro_set

A tidy_micro data set

...

Variables for ordering

low_grad

Colors for the corelation magnitude. Will be fed into scale_fill_gradient

high_grad

Colors for the corelation magnitude. Will be fed into scale_fill_gradient

main

Plot title

xlab

x-axis label

ylab

y-axis label

subtitle

Plot label

natural_order

Keep order of axes in the conventional order for dissimilarity matrices

legend_title

Title for the legend

Value

Returns a ggplot that you can add geoms to if you'd like

Examples

# NOT RUN {
data(phy); data(cla); data(ord); data(fam); data(clin)

otu_tabs = list(Phylum = phy, Class = cla, Order = ord, Family = fam)
set <- tidy_micro(otu_tabs = otu_tabs, clinical = clin) %>%
filter(day == 7) ## Only including the first week

## Bray-Curtis beta diversity
bray <- set %>% beta_div(table = "Family")

bray %>% beta_heatmap(micro_set = set, bpd1)
# }