Biocomb: Feature Selection and Classification with the Embedded Validation Procedures for Biomedical Data Analysis

Contains functions for the data analysis with the emphasis on biological data, including several algorithms for feature ranking, feature selection, classification algorithms with the embedded validation procedures. The functions can deal with numerical as well as with nominal features. Includes also the functions for calculation of feature AUC (Area Under the ROC Curve) and HUM (hypervolume under manifold) values and construction 2D- and 3D- ROC curves. Provides the calculation of Area Above the RCC (AAC) values and construction of Relative Cost Curves (RCC) to estimate the classifier performance under unequal misclassification costs problem. There exists the special function to deal with missing values, including different imputing schemes.

AuthorNatalia Novoselova,Junxi Wang,Frank Pessler,Frank Klawonn
Date of publication2017-03-22 16:29:07 UTC
MaintainerNatalia Novoselova <novos65@mail.ru>
LicenseGPL (>= 3)
Version0.3

View on CRAN

Functions

Biocomb Man page
Biocomb-package Man page
CalcGene Man page
CalcROC Man page
Calculate3D Man page
CalculateHUM_Ex Man page
CalculateHUM_Plot Man page
CalculateHUM_ROC Man page
CalculateHUM_seq Man page
chi2.algorithm Man page
classifier.loop Man page
compute.auc.permutation Man page
compute.auc.random Man page
compute.aucs Man page
cost.curve Man page
datasetF6 Man page
data_test Man page
generate.data.miss Man page
input_miss Man page
leukemia72 Man page
leukemia72_2 Man page
leukemia_miss Man page
pauc Man page
pauclog Man page
plotClass.result Man page
plotRoc.curves Man page
ProcessData Man page
select.cfs Man page
select.fast.filter Man page
select.forward.Corr Man page
select.forward.wrapper Man page
select.inf.chi2 Man page
select.inf.gain Man page
select.inf.symm Man page
select.process Man page
select.relief Man page

Files

Biocomb
Biocomb/src
Biocomb/src/CorrF.cpp
Biocomb/src/CHI2.cpp
Biocomb/src/Biocomb_init.c
Biocomb/src/HUMseq.cpp
Biocomb/src/RcppExports.cpp
Biocomb/NAMESPACE
Biocomb/data
Biocomb/data/datasetF6.txt.gz
Biocomb/data/leukemia72.txt.gz
Biocomb/data/leukemia_miss.txt.gz
Biocomb/data/data_test.txt.gz
Biocomb/data/leukemia72_2.txt.gz
Biocomb/R
Biocomb/R/select.feature.info.R Biocomb/R/plotClass.result.R Biocomb/R/class_cross.R Biocomb/R/ROC_Plot.R Biocomb/R/Sub.filename.R Biocomb/R/CalculateHUM_Ex.R Biocomb/R/input_miss.R Biocomb/R/RcppExports.R Biocomb/R/CalculateHUM_ROC.R Biocomb/R/CalculateHUM_seq.R Biocomb/R/plotRoc.curves.R Biocomb/R/compute.auc.pvalues.R Biocomb/R/pauc.R Biocomb/R/char.to.numeric.R Biocomb/R/rcc.aac.R
Biocomb/MD5
Biocomb/DESCRIPTION
Biocomb/man
Biocomb/man/datasetF6.Rd Biocomb/man/compute.auc.permutation.Rd Biocomb/man/select.forward.Corr.Rd Biocomb/man/select.inf.symm.Rd Biocomb/man/select.inf.gain.Rd Biocomb/man/CalcROC.Rd Biocomb/man/pauclog.Rd Biocomb/man/Calculate3D.Rd Biocomb/man/select.cfs.Rd Biocomb/man/generate.data.miss.Rd Biocomb/man/input_miss.Rd Biocomb/man/ProcessData.Rd Biocomb/man/leukemia72_2.Rd Biocomb/man/leukemia72.Rd Biocomb/man/select.inf.chi2.Rd Biocomb/man/chi2.algorithm.Rd Biocomb/man/data_test.Rd Biocomb/man/CalculateHUM_Ex.Rd Biocomb/man/select.forward.wrapper.Rd Biocomb/man/plotRoc.curves.Rd Biocomb/man/select.fast.filter.Rd Biocomb/man/CalculateHUM_seq.Rd Biocomb/man/leukemia_miss.Rd Biocomb/man/CalculateHUM_ROC.Rd Biocomb/man/select.process.Rd Biocomb/man/compute.auc.random.Rd Biocomb/man/plotClass.result.Rd Biocomb/man/pauc.Rd Biocomb/man/select.relief.Rd Biocomb/man/classifier.loop.Rd Biocomb/man/cost.curve.Rd Biocomb/man/CalculateHUM_Plot.Rd Biocomb/man/Biocomb-package.Rd Biocomb/man/CalcGene.Rd Biocomb/man/compute.aucs.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

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