etest {scperturbR}

etest

Description

Performs E-testing on a Seurat object. Computes E-test statistics for each group in a Seurat object, using the E-distance in space given by reduction to the group defined by control.

Usage

etest(
  seurat_object,
  groupby = "perturbation",
  control = "control",
  reduction = "pca",
  verbose = TRUE,
  permutations = 1000
)

Arguments

seurat_object

An object of class Seurat.

groupby

An object of class character. Points to the column in the Seurat object's meta data that contains the group labels.

control

An object of class character. The group that is used as the control.

reduction

An object of class character. The reduction / embedding in seurat_object that is used to compute the E-distance in.

verbose

An object of class logical. If TRUE, prints messages. Default is TRUE.

permutations

An object of class integer. The number of permutations used to compute the p-value. Default is 1000.

Value

Returns an object of class data.frame. For each group contains the E-test p-value and the E-distance to control group.

Examples

    # Add some code illustrating how to use the function