findInteractions.single: Calculate the Interaction Strength for Single Interaction

In stevexniu/scMatchmaker: Single Cell Matchmaker

Calculate the Interaction Strength for Single Interaction

Description

Calculate the Interaction Strength for a single interaction pairs.

Usage

findInteractions.single(
  data,
  idents,
  ligand,
  receptor,
  stats = c("mean", "median"),
  pair.fxn = c("+", "*"),
  threshold = 0,
  cutoff = NA
)

Arguments

data	Expression data. A d x M matrix with d rows of features and M columns of data points (cells).
idents	Cell type identity in characters or factors.
ligand	Name or index for ligand.
receptor	Name or index for receptor.
stats	Method used to calculate strength. mean, using mean (Default). medain, using median.
pair.fxn	Functions used to calculate pair strength. +, using sum of the pairs (Default). *, using product of the pairs.
cutoff	Cutoff used to calculate the statistics (mean or median). Default is NA. If set to 0, all 0 values will be removed when calculating mean or median.

Value

Returns Earth Mover's Distance.

stevexniu/scMatchmaker documentation built on June 2, 2022, 12:35 p.m.