getClusterSimilarity
Creates data.table with pairwise correlation scores between each cluster.
getClusterSimilarity(
gobject,
expression_values = c("normalized", "scaled", "custom"),
cluster_column,
cor = c("pearson", "spearman")
)| Argument | Description |
|---|---|
gobject |
giotto object |
expression_values |
expression values to use |
cluster_column |
name of column to use for clusters |
cor |
correlation score to calculate distance |
- Creates data.table with pairwise correlation scores between each cluster and
the group size (# of cells) for each cluster. This information can be used together with mergeClusters to combine very similar or small clusters into bigger clusters.
data.table
data("mini_giotto_single_cell")
cluster_similarities = getClusterSimilarity(mini_giotto_single_cell,
cluster_column = 'leiden_clus')