test_differential_cellularity_ {tidybulk}R Documentation

Get differential composition information to a tibble using edgeR.

Description

Get differential composition information to a tibble using edgeR.

Usage

test_differential_cellularity_(
  .data,
  .formula,
  .sample = NULL,
  .transcript = NULL,
  .abundance = NULL,
  method = "cibersort",
  reference = NULL,
  significance_threshold = 0.05,
  ...
)

Arguments

.data

A tibble

.formula

a formula with no response variable, referring only to numeric variables

.sample

The name of the sample column

.transcript

The name of the transcript/gene column

.abundance

The name of the transcript/gene abundance column

method

A string character. Either "edgeR_quasi_likelihood" (i.e., QLF), "edgeR_likelihood_ratio" (i.e., LRT)

reference

A data frame. The transcript/cell_type data frame of integer transcript abundance

significance_threshold

A real between 0 and 1

Value

A tibble with edgeR results


[Package tidybulk version 1.5.0 Index]