Package: dtComb 1.0.7

Gokmen Zararsiz

dtComb: Statistical Combination of Diagnostic Tests

A system for combining two diagnostic tests using various approaches that include statistical and machine-learning-based methodologies. These approaches are divided into four groups: linear combination methods, non-linear combination methods, mathematical operators, and machine learning algorithms. See the <https://biotools.erciyes.edu.tr/dtComb/> website for more information, documentation, and examples.

Authors:Serra Ilayda Yerlitas [aut, ctb], Serra Bersan Gengec [aut, ctb], Necla Kochan [aut, ctb], Gozde Erturk Zararsiz [aut, ctb], Selcuk Korkmaz [aut, ctb], Gokmen Zararsiz [aut, ctb, cre]

dtComb_1.0.7.tar.gz
dtComb_1.0.7.zip(r-4.5)dtComb_1.0.7.zip(r-4.4)dtComb_1.0.7.zip(r-4.3)
dtComb_1.0.7.tgz(r-4.5-any)dtComb_1.0.7.tgz(r-4.4-any)dtComb_1.0.7.tgz(r-4.3-any)
dtComb_1.0.7.tar.gz(r-4.5-noble)dtComb_1.0.7.tar.gz(r-4.4-noble)
dtComb_1.0.7.tgz(r-4.4-emscripten)dtComb_1.0.7.tgz(r-4.3-emscripten)
dtComb.pdf |dtComb.html✨
dtComb/json (API)

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

Bug tracker:https://github.com/gokmenzararsiz/dtcomb/issues

Datasets:
  • allMethods - Machine learning model table for mlComb() Includes machine learning models used for the mlComb function
  • exampleData2 - Biomarker data from carriers of a rare genetic disorder A data set containing the carriers of a rare genetic disorder for 120 samples.
  • exampleData3 - Simulated data with healthy and diseased individuals A simulation data containing 250 diseased and 250 healthy individuals.
  • laparotomy - Diagnostic laparotomy dataset A data set containing the results of diagnostic laparotomy procedures for 225 patients.

On CRAN:

Conda:

4.85 score 7 scripts 281 downloads 13 exports 155 dependencies

Last updated 6 days agofrom:989694d445. Checks:9 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 27 2025
R-4.5-winOKMar 27 2025
R-4.5-macOKMar 27 2025
R-4.5-linuxOKMar 27 2025
R-4.4-winOKMar 27 2025
R-4.4-macOKMar 27 2025
R-4.4-linuxOKMar 27 2025
R-4.3-winOKMar 27 2025
R-4.3-macOKMar 27 2025

Exports:availableMethodshelper_minimaxhelper_minmaxhelper_PCLhelper_PThelper_TSlinCombmathCombmlCombnonlinCombplotCombstd.traintransform_math

Dependencies:abindaskpassbackportsbase64encBiasedUrnbootbroombslibcachemcarcarDatacaretclassclassIntcliclockcodetoolscolorspacecorrplotcowplotcpp11data.tableDBIDerivdiagramdigestdoBydplyre1071epiRevaluatefansifarverfastmapflextablefontawesomefontBitstreamVerafontLiberationfontquiverforeachFormulafsfuturefuture.applygamgdtoolsgenericsggplot2ggpubrggrepelggsciggsignifglmnetglobalsgluegowergridExtragtablehardhathighrhtmltoolsipredisobanditeratorsjquerylibjsonliteKernSmoothknitrlabelinglatticelavalifecyclelistenvlme4lubridatemagrittrMASSMatrixMatrixModelsmemoisemgcvmicrobenchmarkmimeminqaModelMetricsmodelrmunsellnlmenloptrnnetnumDerivofficeropensslOptimalCutpointspanderparallellypbkrtestpillarpkgconfigplyrpolynompROCprodlimprogressrproxypurrrquantregR6raggrappdirsrbibutilsRColorBrewerRcppRcppEigenRdpackrecipesreformulasreshape2rlangrmarkdownrpartrstatixs2sassscalessfshapeSparseMsparsevctrsSQUAREMstringistringrsurvivalsyssystemfontstextshapingtibbletidyrtidyselecttimechangetimeDatetinytextzdbunitsutf8uuidvctrsviridisLitewithrwkxfunxml2yamlzipzoo

dtComb

Rendered fromvignettedtComb.Rnwusingknitr::knitron Mar 27 2025.

Last update: 2025-03-27
Started: 2024-08-11

Readme and manuals

Help Manual

Help pageTopics
Machine learning model table for mlComb() Includes machine learning models used for the mlComb functionallMethods
Available classification/regression methods in 'dtComb'availableMethods
dtComb: A Comprehensive R Package for Combining Diagnostic TestsdtComb-package dtComb
Biomarker data from carriers of a rare genetic disorder A data set containing the carriers of a rare genetic disorder for 120 samples.exampleData2
Simulated data with healthy and diseased individuals A simulation data containing 250 diseased and 250 healthy individuals.exampleData3
Helper function for minimax method.helper_minimax
Helper function for minmax method.helper_minmax
Helper function for PCL method.helper_PCL
Helper function for PT method.helper_PT
Helper function for TS method.helper_TS
Calculate Cohen's kappa and accuracy.kappa.accuracy
Diagnostic laparotomy dataset A data set containing the results of diagnostic laparotomy procedures for 225 patients.laparotomy
Linear Combination Methods for Diagnostic Test ScoreslinComb
Combine two diagnostic tests with several mathematical operators and distance measures.mathComb
Combine two diagnostic tests with Machine Learning Algorithms.mlComb
Combine two diagnostic tests with several non-linear combination methods.nonlinComb
Plot the combination scores using the training modelplotComb
Predict combination scores and labels for new data sets using the training modelpredict.dtComb
Print the summary of linComb, nonlinComb, mlComb and mathComb functions.print_train
Generate ROC curves and related statistics for the given markers and Combination score.rocsum
Standardization according to the training model parameters.std.test
Standardization according to the chosen method.std.train
Mathematical transformations for biomarkerstransform_math