runFISHERmods: Perform Fisher test overrepresentation analysis of each...

In montilab/K2Taxonomer: Creating annotated submodules of high-throughput data through recursive partitioning

Perform Fisher test overrepresentation analysis of each subgroup

Description

Adds overrepresentation testing results using the output of runDGEmods().

Usage

runFISHERmods(
  K2res,
  genesets = NULL,
  qthresh = NULL,
  cthresh = NULL,
  ntotal = NULL
)

Arguments

genesets	Named list. Feature sets to be includes in enrichment-based analyses.
qthresh	Numeric. A value between 0 and 1 indicating the FDR cuttoff to define feature sets.
cthresh	Numeric. A positive value for the coefficient cuttoff to define feature sets.
ntotal	Numeric. A positive value to use as the background feature count. 20000 by default.

Value

An object of class K2.

References

\insertRef

reed_2020K2Taxonomer \insertRefbhK2Taxonomer

montilab/K2Taxonomer documentation built on April 5, 2025, 3:58 a.m.