prot.test_diff: Test Differential Expression

In NicWir/VisomX: User-Friendly and Comprehensive Analysis and Visualization of Omics Data

Test Differential Expression

Description

This function tests for differential expression between conditions

Usage

prot.test_diff(
  se,
  type = c("control", "all", "manual"),
  control = NULL,
  test = NULL,
  design_formula = stats::formula(~0 + condition)
)

Arguments

se	A SummarizedExperiment object
type	Character vector indicating which type of contrast to use. Options are: "control", "all" or "manual".
control	Character vector indicating the control condition. Required when type is "control".
test	Character vector indicating the contrasts to be tested. Required when type is "manual". Needs to be in the form "Subject_vs_Control".
design_formula	Formula object indicating the design of the experiment.

Value

A SummarizedExperiment object with the results of the differential expression test that can be accessed with SummarizedExperiment::rowData(se)

NicWir/VisomX documentation built on Dec. 8, 2024, 1:27 a.m.