TDMR: Tuned Data Mining in R

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

Author
Wolfgang Konen <wolfgang.konen@fh-koeln.de>, Patrick Koch <patrick.koch@fh-koeln.de>
Date of publication
2016-05-19 23:20:09
Maintainer
Wolfgang Konen <wolfgang.konen@fh-koeln.de>
License
GPL (>= 2)
Version
1.4

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

Files in this package

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