multilevelImpl: Calculates P-values for preprocessed data.

In ctlab/fgsea: Fast Gene Set Enrichment Analysis

Calculates P-values for preprocessed data.

Description

Calculates P-values for preprocessed data.

Usage

multilevelImpl(
  multilevelPathwaysList,
  stats,
  sampleSize,
  seed,
  eps,
  sign = FALSE,
  BPPARAM = NULL
)

Arguments

multilevelPathwaysList	List of pathways for which P-values will be calculated.
stats	Named vector of gene-level stats. Names should be the same as in 'pathways'
sampleSize	The size of a random set of genes which in turn has size = pathwaySize
seed	'seed' parameter from 'fgseaMultilevel'
eps	This parameter sets the boundary for calculating the p value.
sign	This option will be used in future implementations.
BPPARAM	Parallelization parameter used in bplapply. Can be used to specify cluster to run. If not initialized explicitly or by setting 'nproc' default value 'bpparam()' is used.

Value

List of P-values.

ctlab/fgsea documentation built on Oct. 10, 2024, 10:31 a.m.