getClusterSimilarity#

Date

2022-10-06

https://github.com/drieslab/Giotto/tree/suite/R/clustering.R#L2129

Description#

Creates data.table with pairwise correlation scores between each cluster.

Usage#

getClusterSimilarity(
  gobject,
  spat_unit = NULL,
  feat_type = NULL,
  expression_values = c("normalized", "scaled", "custom"),
  cluster_column,
  cor = c("pearson", "spearman")
)

Arguments#

Argument

Description

gobject

giotto object

spat_unit

spatial unit

feat_type

feature type

expression_values

expression values to use

cluster_column

name of column to use for clusters

cor

correlation score to calculate distance

Details#

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.

Value#

data.table