Performs SparCC network analysis on a tidytacos object and then performs Markov Clustering on the network to annotate taxa of the largest clusters in the tidytacos object.

Performs SparCC network analysis on a tidytacos object and then performs Markov Clustering on the network to annotate taxa of the largest clusters in the tidytacos object.

Usage

cluster_taxa(
  ta,
  min_occurrence = 0.05,
  network_thresh = 0.1,
  min_n_cluster = 3,
  taxon_name = taxon,
  sample_name = sample
)

Arguments

ta

a tidytacos object.

min_occurrence

Percentage of samples the taxon needs to be present in for it to be considered in the analysis.

network_thresh

absolute value of correlations below this threshold are filtered out.

min_n_cluster

minimum number of taxa per cluster, smaller clusters are filtered out.

taxon_name

unique name to use for the taxa, by default taxon_id is used.

sample_name

unique name to use for the samples, by default sample_id is used.