fgsea: multilevelImpl – R documentation

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multilevelImpl

Calculates P-values for preprocessed data.

Calculates P-values for preprocessed data.

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

`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.

List of P-values.

Fast Gene Set Enrichment Analysis

v1.16.0

MIT + file LICENCE

Authors

Gennady Korotkevich [aut], Vladimir Sukhov [aut], Nikolay Budin [ctb], Alexey Sergushichev [aut, cre]

Initial release