xCellSignifcanceRandomMatrix: Calculate Significance Using Random Matrix

In IOBR: Immune Oncology Biological Research

Calculate Significance Using Random Matrix

Description

Calculates FDR-adjusted p-values using a random shuffled matrix.

Usage

xCellSignifcanceRandomMatrix(
  scores,
  expr,
  spill,
  alpha = 0.5,
  nperm = 250,
  file.name = NULL
)

Arguments

scores	xCell scores matrix.
expr	Input expression matrix.
spill	Spillover object.
alpha	Spillover alpha parameter. Default is '0.5'.
nperm	Number of permutations. Default is '250'.
file.name	Character string for saving p-values. Default is 'NULL'.

Value

List containing p-values, shuffled xCell scores, shuffled expression, and beta distributions.

IOBR documentation built on May 30, 2026, 5:07 p.m.