PrunePredictors: Given multiple composite predictors, prune the predictors...

In ncats/MultiOmicsGraphPrediction: Network-Based Ensemble Prediction from IntLIM Predictors

Given multiple composite predictors, prune the predictors that are not needed.

Description

Given multiple composite predictors, prune the predictors that are not needed.

Usage

PrunePredictors(
  compositeSubgraphs,
  previousModels,
  modelResults,
  verbose = FALSE,
  makePlots = FALSE,
  pruningMethod = "error.t.test",
  tolerance = 1e-05,
  modelRetention = "stringent",
  minCutoff,
  maxCutoff,
  useCutoff = FALSE,
  weights,
  individualPerformance,
  layerNumber,
  pruningTechnique = "backward.stepwise",
  averaging = averaging,
  zeroOut = FALSE
)

Arguments

compositeSubgraphs	A list of pairs to include in the composite model.
previousModels	A list of the previous models that were consolidated.
modelResults	A ModelResults object.
verbose	Whether or not to print out each step.
makePlots	Whether or not to plot the pruned model at each step.
pruningMethod	The method to use for pruning. Right now, only "error.t.test" is valid.
tolerance	Tolerance factor when computing equality of two numeric values.
modelRetention	Strategy for model retention. "stringent" (the default) retains only models that improve the prediction score. "lenient" also retains models that neither improve nor reduce the prediction score.
minCutoff	Mininum cutoff for the prediction.
maxCutoff	Maximum cutoff for the prediction.
useCutoff	Whether or not to use the cutoff for prediction. Default is FALSE.
weights	The weights for each predictor, calculated using ComputeMetaFeatureWeights()
individualPerformance	The score (using the pruning method) for each individual component of the model.
layerNumber	Number of layer in the model.
pruningTechnique	Pruning technique to use. Possible methods are "backward.stepwise", "forward.stepwise", "individual.performance", "exhaustive", and "both".
averaging	If TRUE, then averaging is used to combine predictors rather than retaining the same functional form for both the input and the output.
zeroOut	This parameter zeros out predictors outside of the allowed range.

Value

A list of sets, where each set is a neighborhood of nodes.

ncats/MultiOmicsGraphPrediction documentation built on Aug. 23, 2023, 9:19 a.m.