TDMR: Tuned Data Mining in R

Tuned Data Mining in R (TDMR) performs a complete tuning of a data mining task.

Install the latest version of this package by entering the following in R:
install.packages("TDMR")
AuthorWolfgang Konen <wolfgang.konen@fh-koeln.de>, Patrick Koch <patrick.koch@fh-koeln.de>
Date of publication2016-05-19 23:20:09
MaintainerWolfgang Konen <wolfgang.konen@fh-koeln.de>
LicenseGPL (>= 2)
Version1.4

View on CRAN

Man pages

bfgsTuner: Perform BFGS tuning.

cat1: Output objects to 'cat' if 'opts$VERBOSE>=1'.

cat2: Output objects to 'cat' if 'opts$VERBOSE>=2'.

cmaesTuner: Perform CMA-ES tuning (R version).

cma_jTuner: Perform CMA-ES tuning (Java version).

dsetTest: Return test data

dsetTest.TDMdata: Return test data of 'TDMdata' object

dsetTrnVa: Return train-validataion data

dsetTrnVa.TDMdata: Return train-validation data of 'TDMdata' object

lhdTuner: Perform LHD tuning.

makeTdmRandomSeed: Factory method to make a function generating pseudo-random...

Opts: Return the list 'opts'.

powellTuner: Perform Powell's tuning.

predict.TDMenvir: Make a prediction using the last model.

print1: Print objects using 'print' if 'opts$VERBOSE>=1'.

print2: Print objects using 'print' if 'opts$VERBOSE>=2'.

print.TDMclassifier: Print an overview for a 'TDMclassifier' object.

print.TDMdata: Print an overview for a 'TDMdata' object.

print.TDMregressor: Print an overview for a 'TDMregressor' object.

spotTuner: Perform a SPOT tuning.

tdmBigLoop: Tuning and unbiased evaluation in a big loop.

tdmBindResponse: Bind a column to a data frame.

tdmClassify: Core classification function of TDMR.

tdmClassifyLoop: Core classification double loop of TDMR returning a...

tdmClassifySummary: Print summary output for 'result' from 'tdmClassifiyLoop' and...

tdmDefaultsFill: Default values for list 'tdm'.

tdmDispatchTuner: Helper function for 'tdmBigLoop'.

tdmEmbedDataFrame: Embed columns in a data frame.

tdmEnvTAddBstRes: Add BST and RES data frames to an existing 'envT'...

tdmEnvTAddGetters: Add getter functions getBst and getRes to environment envT

tdmEnvTGetOpts: Return list opts from the 'k'-th '.conf'-file

tdmEnvTLoad: Load an 'envT'-type environment from file 'fileRData'.

tdmEnvTMakeNew: Construct a new environment envT of class 'TDMenvir'.

tdmEnvTReadApd: Re-read APD-files (list opts) for an environment envT of...

tdmEnvTSensi: Make a sensitivity plot based on 'envT'

tdmEnvTSetOpts: Set list opts for the 'k'-th '.conf'-file

tdmExecSpotStep: Execute the tuning process with the given 'spotStep'

tdmGraAndLogFinalize: Finalize graphics and log file

tdmGraAndLogInitialize: Initialize graphics and log file.

tdmGraphicCloseDev: Close all open graphic devices.

tdmGraphicCloseWin: Close active file ("png").

tdmGraphicInit: Initialize graphic device.

tdmGraphicNewWin: Initialize a new window.

tdmGraphicToTop: Bring the acitve window to the top

tdmMapDesApply: Apply the mapping from 'des' to 'opts'.

tdmMapDesLoad: Load the mapping files.

tdmModConfmat: Calculate confusion matrix, gain and RGain measure.

tdmModCreateCVindex: Create and return a training-validation-set index vector.

tdmModSortedRFimport: Sort the input variables decreasingly by their RF-importance.

tdmModVote2Target: Analyze how the vote fraction corresponds to reliability of...

tdmOptsDefaultsFill: Fill the current 'opts'.

tdmOptsDefaultsSet: Default values for list 'opts'.

tdmParaBootstrap: Parametric bootstrap: add 'noisy copies' to a data frame...

tdmPlotResMeta: Interactive plots of RES data frames and their metamodels.

tdmPreAddMonomials: Add monomials of degree 2 to a data frame.

tdmPreFindConstVar: Find constant columns.

tdmPreGroupLevels: Group the levels of factor variable in 'dset[,colname]'.

tdmPreLevel2Target: Relate levels of a column with a target (column).

tdmPreNAroughfix: Replace <NA> values with suitable non <NA> values

tdmPrePCA.apply: Apply PCA (Principal Component Analysis) to new data.

tdmPrePCA.train: PCA (Principal Component Analysis) for numeric columns in a...

tdmPreSFA.apply: Apply SFA (Slow Feature Analysis) to new data.

tdmPreSFA.train: SFA (Slow Feature Analysis) for numeric columns in a data...

tdmRandomSeed: Generates pseudo-random random number seeds.

tdmReadCmd: Template function, the default for opts$READ.CMD.

tdmReadData: Read the data accoroding to the settings in 'opts'.

tdmReadData2: Read data accoroding to 'opts' settings.

tdmRegress: Core regression function of TDMR.

tdmRegressLoop: Core regression double loop of TDMR returning a...

tdmRegressSummary: Print summary output for 'result' from 'tdmRegressLoop' and...

tdmROCR: Interactive plot of ROC charts

tdmROCRbase: Single plot of ROC, lift or other chart for a 'TDMclassifier'...

tdmROCR.TDMclassifier: Interactive plot of ROC, lift or other charts for a...

TDMR-package: Tuned Data Mining in R

tdmSplitTestData: Read and split the task data.

tdmStartSpot: Function called by 'spot' to evaluate a DM task during a...

tdmTuneIt: Tuning and unbiased evaluation (single tuning).

unbiasedBestRun_O: Perform unbiased runs with best-solution parameters...

unbiasedRun: Perform unbiased runs with best-solution parameters.

zzz: just to make example check happy

Functions

bfgsTuner Man page
cat1 Man page
cat2 Man page
cmaesTuner Man page
cma_jTuner Man page
dsetTest Man page
dsetTest.TDMdata Man page
dsetTrnVa Man page
dsetTrnVa.TDMdata Man page
lhdTuner Man page
makeTdmRandomSeed Man page
Opts Man page
Opts.default Man page
Opts.tdmClass Man page
Opts.TDMclassifier Man page
Opts.TDMenvir Man page
Opts.tdmRegre Man page
Opts.TDMregressor Man page
powellTuner Man page
predict.TDMclassifier Man page
predict.TDMenvir Man page
predict.TDMregressor Man page
print1 Man page
print2 Man page
print.tdmClass Man page
print.TDMclassifier Man page
print.TDMdata Man page
print.tdmRegre Man page
print.TDMregressor Man page
spotTuner Man page
tdmBigLoop Man page
tdmBindResponse Man page
TDMclassifier Man page
tdmClassify Man page
tdmClassifyLoop Man page
tdmClassifySummary Man page
TDMdata Man page
tdmDefaultsFill Man page
tdmDispatchTuner Man page
tdmEmbedDataFrame Man page
TDMenvir Man page
tdmEnvTAddBstRes Man page
tdmEnvTAddGetters Man page
tdmEnvTGetOpts Man page
tdmEnvTLoad Man page
tdmEnvTMakeNew Man page
tdmEnvTReadApd Man page
tdmEnvTSensi Man page
tdmEnvTSetOpts Man page
tdmExecSpotStep Man page
tdmGraAndLogFinalize Man page
tdmGraAndLogInitialize Man page
tdmGraphicCloseDev Man page
tdmGraphicCloseWin Man page
tdmGraphicInit Man page
tdmGraphicNewWin Man page
tdmGraphicToTop Man page
tdmMapDesApply Man page
tdmMapDesLoad Man page
tdmModConfmat Man page
tdmModCreateCVindex Man page
tdmModSortedRFimport Man page
tdmModVote2Target Man page
tdmOptsDefaultsFill Man page
tdmOptsDefaultsSet Man page
tdmParaBootstrap Man page
tdmPlotResMeta Man page
tdmPreAddMonomials Man page
tdmPreFindConstVar Man page
tdmPreGroupLevels Man page
tdmPreLevel2Target Man page
tdmPreNAroughfix Man page
tdmPrePCA.apply Man page
tdmPrePCA.train Man page
tdmPreSFA.apply Man page
tdmPreSFA.train Man page
TDMR Man page
tdmRandomSeed Man page
tdmReadCmd Man page
tdmReadData Man page
tdmReadData2 Man page
tdmRegress Man page
tdmRegressLoop Man page
TDMregressor Man page
tdmRegressSummary Man page
tdmROCR Man page
tdmROCRbase Man page
tdmROCR.TDMclassifier Man page
TDMR-package Man page
tdmSplitTestData Man page
tdmStartSpot Man page
tdmTuneIt Man page
unbiasedBestRun_O Man page
unbiasedRun Man page
zzz Man page

Files

TDMR
TDMR/inst
TDMR/inst/examples
TDMR/inst/examples/ex_tdmClassifyLoop.r
TDMR/inst/examples/ex_SplitTestData.r
TDMR/inst/examples/ex_unbiasedRun.r
TDMR/inst/examples/ex_tdmTuneIt.r
TDMR/inst/examples/ex-winequality
TDMR/inst/examples/ex-winequality/wine_01.conf
TDMR/inst/examples/ex-winequality/wine_01.roi
TDMR/inst/examples/ex-winequality/wine_01.RData
TDMR/inst/examples/ex-winequality/data
TDMR/inst/examples/ex-winequality/data/winequality-red.csv
TDMR/inst/examples/ex-winequality/data/wineDataDescription.txt
TDMR/inst/examples/ex-winequality/data/winequality-white.csv
TDMR/inst/examples/ex-winequality/wine_01.apd
TDMR/inst/examples/ex-winequality/final_wine.r
TDMR/inst/examples/ex-winequality/start_wine.r
TDMR/inst/examples/ex-winequality/main_wine.r
TDMR/inst/examples/ex_demo04Par.r
TDMR/inst/examples/ex_tdmBigLoop.r
TDMR/inst/examples/ex_EnvTSensi.r
TDMR/inst/examples/ex_predictEnvT.r
TDMR/inst/examples/ex_tdmRegress.r
TDMR/inst/examples/ex_tdmRegressLoop.r
TDMR/inst/examples/ex_tdmClassify.r
TDMR/inst/source.tdm.r
TDMR/inst/tdmMapDesign.csv
TDMR/inst/start.tdm.r
TDMR/inst/demo02sonar
TDMR/inst/demo02sonar/start_sonar.r
TDMR/inst/demo02sonar/main_sonar.r
TDMR/inst/demo02sonar/sonar_04.roi
TDMR/inst/demo02sonar/sonar_01.conf
TDMR/inst/demo02sonar/sonar_03.apd
TDMR/inst/demo02sonar/sonar_06.apd
TDMR/inst/demo02sonar/start_tuneIt.r
TDMR/inst/demo02sonar/sonar_05.conf
TDMR/inst/demo02sonar/data
TDMR/inst/demo02sonar/data/sonar.txt
TDMR/inst/demo02sonar/data/sonar.Rdata
TDMR/inst/demo02sonar/sonar_02.roi
TDMR/inst/demo02sonar/start_bigLoop.r
TDMR/inst/demo02sonar/start_rerun.r
TDMR/inst/demo02sonar/sonar_04.apd
TDMR/inst/demo02sonar/outcmaesdisp.dat
TDMR/inst/demo02sonar/sonar_01.roi
TDMR/inst/demo02sonar/sonar_01.apd
TDMR/inst/demo02sonar/sonar_06.conf
TDMR/inst/demo02sonar/demoSonar.RData
TDMR/inst/demo02sonar/sonar_02.conf
TDMR/inst/demo02sonar/sonar_00.apd
TDMR/inst/demo02sonar/sonar_04.conf
TDMR/inst/demo02sonar/sonar_06.roi
TDMR/inst/demo02sonar/sonar_02.apd
TDMR/inst/demo02sonar/sonar_03.conf
TDMR/inst/startFromSource.r
TDMR/inst/doc
TDMR/inst/doc/index.html
TDMR/inst/doc/changes.html
TDMR/inst/doc/TDMR-docu.pdf
TDMR/inst/doc/TDMR-tutorial.pdf
TDMR/inst/doc/aareadme.txt
TDMR/inst/demo01cpu
TDMR/inst/demo01cpu/Rplots.pdf
TDMR/inst/demo01cpu/cpu_01.conf
TDMR/inst/demo01cpu/cpu_01.apd
TDMR/inst/demo01cpu/Rplots2.pdf
TDMR/inst/demo01cpu/cpu_01.roi
TDMR/inst/demo01cpu/data
TDMR/inst/demo01cpu/data/cpu.Rdata
TDMR/inst/demo01cpu/data/cpu.csv
TDMR/inst/demo01cpu/main_cpu.r
TDMR/inst/demo01cpu/start_bigLoop.r
TDMR/inst/demo01cpu/cpu_02.conf
TDMR/inst/demo01cpu/cpu_00.apd
TDMR/inst/demo01cpu/Rplots1.pdf
TDMR/inst/demo01cpu/script_all.R
TDMR/inst/demo01cpu/start_cpu.r
TDMR/NAMESPACE
TDMR/demo
TDMR/demo/demo04cpu.r
TDMR/demo/demo03sonar.r
TDMR/demo/demo05visMeta.r
TDMR/demo/demo00-0classif.r
TDMR/demo/demo07cma_j.r
TDMR/demo/demo08parallel.r
TDMR/demo/demo03sonar_B.r
TDMR/demo/demo03newpredict.r
TDMR/demo/demo00-1regress.r
TDMR/demo/demo01-2cpu.r
TDMR/demo/demo06ROCR.r
TDMR/demo/demo03newdata.r
TDMR/demo/demo02sonar.r
TDMR/demo/00Index
TDMR/demo/demo01-1sonar.r
TDMR/R
TDMR/R/tdmExecSpotStep.r
TDMR/R/tdmGeneralUtils.r
TDMR/R/tdmModelingUtils.r
TDMR/R/tdmRegress.r
TDMR/R/unbiasedBestRun_O.r
TDMR/R/unbiasedRun.r
TDMR/R/tdmMapDesign.r
TDMR/R/tdmOptsDefaults.r
TDMR/R/tdmReadData2.r
TDMR/R/tdmParaBootstrap.r
TDMR/R/tdmEmbedDataFrame.r
TDMR/R/tdmDefaultsFill.r
TDMR/R/tdmClassify.r
TDMR/R/tdmStartSpot.r
TDMR/R/tdmRegressLoop.r
TDMR/R/tdmDispatchTuner.r
TDMR/R/makeTdmRandomSeed.r
TDMR/R/tdmBigLoop.r
TDMR/R/printTDMregressor.r
TDMR/R/tdmTuneIt.r
TDMR/R/tdmReadData.r
TDMR/R/tdmEnvTMakeNew.r
TDMR/R/tdmPreprocUtils.r
TDMR/R/tdmGraphicUtils.r
TDMR/R/tdmClassifyLoop.r
TDMR/R/tdmROCR.r
TDMR/R/tdmGetObj.r
TDMR/R/tdmSplitTestData.r
TDMR/R/tdmPlotResMeta.r
TDMR/R/tdmMetacostRf.r
TDMR/R/printTDMclassifier.r
TDMR/R/tdmStartOther.r
TDMR/MD5
TDMR/DESCRIPTION
TDMR/man
TDMR/man/tdmMapDesApply.Rd TDMR/man/bfgsTuner.Rd TDMR/man/tdmEnvTMakeNew.Rd TDMR/man/tdmPreSFA.train.Rd TDMR/man/dsetTest.Rd TDMR/man/tdmEnvTLoad.Rd TDMR/man/tdmPreLevel2Target.Rd TDMR/man/tdmGraphicToTop.Rd TDMR/man/lhdTuner.Rd TDMR/man/tdmRegress.Rd TDMR/man/predict.TDMenvir.Rd TDMR/man/tdmReadCmd.Rd TDMR/man/tdmGraAndLogFinalize.Rd TDMR/man/unbiasedRun.Rd TDMR/man/print.TDMdata.Rd TDMR/man/Opts.Rd TDMR/man/tdmPrePCA.apply.Rd TDMR/man/spotTuner.Rd TDMR/man/tdmTuneIt.Rd TDMR/man/tdmEmbedDataFrame.Rd TDMR/man/tdmGraphicInit.Rd TDMR/man/tdmModVote2Target.Rd TDMR/man/dsetTest.TDMdata.Rd TDMR/man/tdmROCR.Rd TDMR/man/tdmEnvTGetOpts.Rd TDMR/man/tdmPlotResMeta.Rd TDMR/man/tdmClassify.Rd TDMR/man/tdmParaBootstrap.Rd TDMR/man/cat2.Rd TDMR/man/tdmEnvTAddBstRes.Rd TDMR/man/tdmEnvTSetOpts.Rd TDMR/man/unbiasedBestRun_O.Rd TDMR/man/tdmEnvTAddGetters.Rd TDMR/man/cma_jTuner.Rd TDMR/man/powellTuner.Rd TDMR/man/tdmRandomSeed.Rd TDMR/man/tdmClassifySummary.Rd TDMR/man/dsetTrnVa.Rd TDMR/man/tdmModSortedRFimport.Rd TDMR/man/tdmSplitTestData.Rd TDMR/man/tdmRegressLoop.Rd TDMR/man/print.TDMclassifier.Rd TDMR/man/print1.Rd TDMR/man/tdmDefaultsFill.Rd TDMR/man/tdmPreGroupLevels.Rd TDMR/man/tdmROCR.TDMclassifier.Rd TDMR/man/tdmEnvTReadApd.Rd TDMR/man/tdmGraphicCloseDev.Rd TDMR/man/print2.Rd TDMR/man/tdmPreNAroughfix.Rd TDMR/man/print.TDMregressor.Rd TDMR/man/zzz.Rd TDMR/man/tdmMapDesLoad.Rd TDMR/man/makeTdmRandomSeed.Rd TDMR/man/tdmROCRbase.Rd TDMR/man/TDMR-package.Rd TDMR/man/tdmStartSpot.Rd TDMR/man/tdmExecSpotStep.Rd TDMR/man/cat1.Rd TDMR/man/tdmPrePCA.train.Rd TDMR/man/tdmRegressSummary.Rd TDMR/man/tdmEnvTSensi.Rd TDMR/man/cmaesTuner.Rd TDMR/man/tdmReadData.Rd TDMR/man/tdmGraphicNewWin.Rd TDMR/man/tdmPreFindConstVar.Rd TDMR/man/tdmPreAddMonomials.Rd TDMR/man/tdmModConfmat.Rd TDMR/man/tdmBindResponse.Rd TDMR/man/tdmGraphicCloseWin.Rd TDMR/man/dsetTrnVa.TDMdata.Rd TDMR/man/tdmBigLoop.Rd TDMR/man/tdmOptsDefaultsSet.Rd TDMR/man/tdmClassifyLoop.Rd TDMR/man/tdmDispatchTuner.Rd TDMR/man/tdmModCreateCVindex.Rd TDMR/man/tdmReadData2.Rd TDMR/man/tdmOptsDefaultsFill.Rd TDMR/man/tdmPreSFA.apply.Rd TDMR/man/tdmGraAndLogInitialize.Rd

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