mf.rsamp.mutualinfo_test: Resampling test for significance of mutual information...

In mrmtshmp/ExploratoryDataAnalysis: Make plots for explanatory data analyses

Description

Resampling test for significance of mutual information between alpha-diversity index and some feature selection method. This function uses MIPermute internally without permutation (this is controlled by setting *n.sim=1*)

Usage

mf.rsamp.mutualinfo_test(
  var.x = "BVAS",
  data = pData.obj.aggTaxa.ADS,
  count.table = MRcounts(obj.aggTaxa.ADS),
  ori.count.table = MRcounts(obj.aggTaxa),
  itt.rsamp = itt.rsamp.wilcox,
  func.stat = vegan::diversity,
  MIPermute.method = "emp",
  MIPermute.discretize.X = "equalfreq",
  MIPermute.discretize.Y = "equalfreq",
  MIPermute.alpha = 0.6,
  ...
)

Arguments

var.x	Column name of phenotype data.
data	A data.frame-class object in which phenotype data were input.
count.table	A data.frame-class object of selected features.
ori.count.table	A data.frame-class object of features without selection.
itt.rsamp	= itt.rsamp.wilcox,
func.stat	= vegan::diversity,
...	Arguments to be passed to a function in func.stat and MIPermute function.

mrmtshmp/ExploratoryDataAnalysis documentation built on Oct. 6, 2020, 8 a.m.