calculateDistMatOneModel: Calculate Distance Matrix Using a Single Model

In CIDER: Meta-Clustering for scRNA-Seq Integration and Evaluation

Calculate Distance Matrix Using a Single Model

Description

This function computes a similarity matrix by utilising a single linear model for differential expression analysis.

Usage

calculateDistMatOneModel(
  matrix,
  metadata,
  verbose = TRUE,
  method = "voom",
  additional.variate = NULL
)

Arguments

matrix	A count matrix with rows representing genes or features and columns representing samples or cells.
metadata	A data frame containing metadata corresponding to the samples or cells. Each row should match a column in matrix.
verbose	Logical. If TRUE, the function displays progress messages and a progress bar. The default is TRUE.
method	A character string specifying the method for differential expression analysis. Options are "voom" or "trend", with "trend" as the default.
additional.variate	A character vector of additional variates to include in the linear model for regression.

Value

A similarity matrix.

See Also

getDistMat

CIDER documentation built on April 4, 2025, 2:28 a.m.