calcCoGAPSStat-methods: calculate statistic on sets of measurements (genes) or...

In CoGAPS/CoGAPS: Coordinated Gene Activity in Pattern Sets

calculate statistic on sets of measurements (genes) or samples

Description

calculates a statistic to determine if a pattern is enriched in a a particular set of measurements or samples.

Usage

calcCoGAPSStat(
  object,
  sets = NULL,
  whichMatrix = "featureLoadings",
  numPerm = 1000,
  ...
)

## S4 method for signature 'CogapsResult'
calcCoGAPSStat(
  object,
  sets = NULL,
  whichMatrix = "featureLoadings",
  numPerm = 1000,
  ...
)

Arguments

object	an object of type CogapsResult
sets	list of sets of measurements/samples
whichMatrix	either "featureLoadings" or "sampleFactors" indicating which matrix to calculate the statistics for
numPerm	number of permutations to use when calculatin p-value
...	handles old arguments for backwards compatibility

Value

gene set statistics for each column of A

CoGAPS/CoGAPS documentation built on April 12, 2024, 3:12 a.m.