Package: rfPermute 2.5.2

Eric Archer

rfPermute: Estimate Permutation p-Values for Random Forest Importance Metrics

Estimate significance of importance metrics for a Random Forest model by permuting the response variable. Produces null distribution of importance metrics for each predictor variable and p-value of observed. Provides summary and visualization functions for 'randomForest' results.

Authors:Eric Archer [aut, cre]

rfPermute_2.5.2.tar.gz
rfPermute_2.5.2.tar.gz(r-4.5-noble)rfPermute_2.5.2.tar.gz(r-4.4-noble)
rfPermute_2.5.2.tgz(r-4.4-emscripten)rfPermute_2.5.2.tgz(r-4.3-emscripten)
rfPermute.pdf |rfPermute.html✨
rfPermute/json (API)

# Install 'rfPermute' in R:
install.packages('rfPermute', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/ericarcher/rfpermute/issues

Uses libs:
  • jags– Just Another Gibbs Sampler for Bayesian MCMC
  • c++– GNU Standard C++ Library v3
Datasets:
  • symb.metab - Symbiodinium type metabolite profiles

4.38 score 1 stars 1 packages 92 scripts 1.7k downloads 42 mentions 20 exports 76 dependencies

Last updated 1 years agofrom:52c06261a3. Checks:OK: 1 NOTE: 1. Indexed: no.

TargetResultDate
Doc / VignettesOKNov 15 2024
R-4.5-linuxNOTENov 15 2024

Exports:as.randomForestbalancedSampsizecasePredictionsclassPriorscleanRFdatacombineRPconfusionMatriximportancepctCorrectplotConfMatplotImportanceplotImpPredsplotInbagplotNullplotPredictedProbsplotProximityplotTraceplotVotesrfPermuterfPermuteTutorial

Dependencies:abindclassclassIntcliclueclustercodacolorspacecpp11DBIdeldirdplyre1071fansifarverfBasicsgenericsggplot2ggrepelgluegridExtragssgtableHDIntervaligraphisobandKernSmoothkknnlabelinglatticelifecyclemagrittrMASSMatrixmgcvmodeestmunsellnlmepillarpkgconfigpolyclipproxypurrrR6randomForestRColorBrewerRcpprlangrmutilrpartrunjagss2scalessfspatialspatstat.dataspatstat.geomspatstat.univarspatstat.utilsstablestablediststatipstringistringrswfscMisctibbletidyrtidyselecttimeDatetimeSeriesunitsutf8vctrsviridisLitewithrwk

Readme and manuals

Help Manual

Help pageTopics
Balanced Sample SizebalancedSampsize
Case PredictionscasePredictions
Class PriorsclassPriors
Clean Random Forest Input DatacleanRFdata
Combine rfPermute objectscombineRP
Confusion MatrixconfusionMatrix plotConfMat
Extract rfPermute Importance Scores and p-values.importance importance.rfPermute plotImportance
Percent Correctly ClassifiedpctCorrect
Plot Important Predictor DistributionplotImpPreds
Plot Inbag distributionplotInbag
Plot Random Forest Importance Null DistributionsplotNull
Plot Predicted ProbabilitiesplotPredictedProbs
Plot Random Forest Proximity ScoresplotProximity
Plot TraceplotTrace
Plot Vote DistributionplotVotes
Estimate Permutation p-values for Random Forest Importance Metricsas.randomForest predict.rfPermute print.rfPermute rfPermute rfPermute.default rfPermute.formula
'rfPermute' packagerfPermute-package rfPermuteTutorial rfPermute_package
Diagnostics of 'rfPermute' or 'randomForest' models.summary summary.randomForest summary.rfPermute
Symbiodinium type metabolite profilessymb.metab