getClusterSimilarity: getClusterSimilarity

In bernard2012/Giotto: Spatial single-cell transcriptomics toolbox

Description

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

Usage

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

Arguments

gobject	giotto object
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

Examples

    getClusterSimilarity(gobject)

bernard2012/Giotto documentation built on Sept. 22, 2020, 10:29 a.m.