Beta diversity partition (Jaccard/Sorensen) — beta_partition

This function computes beta diversity partition (Jaccard or Sorensen) using the betapart package, and plots the ordination (PCoA/NMDS) with gg_ordiplot.

beta_partition_plot(
  table,
  metadata,
  index = "jaccard",
  group_col = NULL,
  shape_col = NULL,
  legend_title = NULL,
  point_size = 3,
  colors = NULL,
  save_table = TRUE,
  table_filename = "SAMPLE1"
)

Arguments

table: Abundance matrix (samples in rows, species/features in columns).
metadata: Data frame with sample metadata. First column must be SampleID.
index: Family of dissimilarity: "jaccard" (default) or "sorensen".
group_col: Column in metadata to use as color grouping.
shape_col: Optional column in metadata for point shapes.
legend_title: Optional custom legend title.
colors: Optional named vector of colors for groups.

Value

A combined cowplot panel of beta diversity partition plots.

Examples

beta_partition_plot(table=table,
                    metadata= metadata,
                    group_col="metodo", 
                    point_size = 4,
                    colors = c("gray", "blue"))
#> Error in table_pa > 0: comparison (>) is possible only for atomic and list types