Package: MKmisc 1.9

MKmisc: Miscellaneous Functions from M. Kohl

Contains several functions for statistical data analysis; e.g. for sample size and power calculations, computation of confidence intervals and tests, and generation of similarity matrices.

Authors:Matthias Kohl [aut, cre]

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MKmisc.pdf |MKmisc.html✨
MKmisc/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/stamats/mkmisc/issues

On CRAN:

77 exports 11 stars 3.38 score 32 dependencies 1 dependents 16 mentions 99 scripts 788 downloads

Last updated 2 years agofrom:e738e1f1b1. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 10 2024
R-4.5-winNOTESep 10 2024
R-4.5-linuxNOTESep 10 2024
R-4.4-winNOTESep 10 2024
R-4.4-macNOTESep 10 2024
R-4.3-winNOTESep 10 2024
R-4.3-macNOTESep 10 2024

Exports:AUCAUC.testbinomCIcorDistcorPlotCVcvCIfiveNSglogglog10glog2heatmapColHLgof.testhsu.t.testimputeSDinv.gloginv.glog10inv.glog2IQrangeiqrCViqrSNRmadCImadMatrixmadPlotmeanADmedCVmedianCImedSNRmelt.longmi.t.testmod.oneway.testmod.t.testnormCInormDiffCIoneWayAnovaoptCutoffor2rrpairwise.aucpairwise.fcpairwise.funpairwise.logfcpairwise.mod.t.testperfMeasuresperfScorespower.diagnostic.testpower.hsu.t.testpower.nb.testpower.welch.t.testpredValuesqboxplotqbxp.statsquantileCIrepMeansrisksrrCIscale_x_glogscale_x_glog10scale_x_glog2scale_x_neglogscale_x_neglog10scale_x_neglog2scale_y_glogscale_y_glog10scale_y_glog2scale_y_neglogscale_y_neglog10scale_y_neglog2simCorVarssimPlotsIQRSNRssize.pccstringDiststringSimthyroidtraceBacktwoWayAnova

Dependencies:clicolorspaceDEoptimRfansifarverggplot2gluegtableisobandlabelinglatticelifecyclelimmamagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigR6RColorBrewerrlangrobustbasescalesstatmodtibbleutf8vctrsviridisLitewithr

Package MKmisc

Matthias Kohl

Rendered fromMKmisc.Rmdusingknitr::rmarkdownon Sep 10 2024.

Last update: 2019-09-07
Started: 2018-03-08

Readme and manuals

Help Manual

Help pageTopics
Miscellaneous Functions from M. Kohl.MKmisc-package MKmisc
Compute AUCAUC
AUC-TestAUC.test
Confidence Intervals for Binomial ProportionsbinomCI
Correlation Distance Matrix ComputationcorDist
Plot of similarity matrix based on correlationcorPlot
Compute CVCV iqrCV medCV
Confidence Intervals for Coefficient of VariationcvCI
Five-Number SummariesfiveNS
Compute Generalized Logarithmglog glog10 glog2 inv.glog inv.glog10 inv.glog2
Generate colors for heatmapsheatmapCol
Hosmer-Lemeshow goodness of fit tests.HLgof.test
Hsu Two-Sample t-Testhsu.t.test hsu.t.test.default hsu.t.test.formula
Impute Standard Deviations for Changes from BaselineimputeSD
The Interquartile RangeIQrange sIQR
Compute MAD between colums of a matrix or data.framemadMatrix
Plot of similarity matrix based on MADmadPlot
The Mean Absolute DeviationmeanAD
Transform data.frame to Long Formmelt.long
Multiple Imputation Student's t-Testmi.t.test mi.t.test.default
Moderated 1-Way ANOVAmod.oneway.test
Moderated t-Testmod.t.test
Confidence Intervals for Mean and Standard DeviationnormCI
Confidence Intervals for Difference of MeansnormDiffCI
A function for Analysis of VarianceoneWayAnova
Compute the Optimal Cutoff for Binary ClassificationoptCutoff
Transform OR to RRor2rr
Compute pairwise AUCspairwise.auc
Compute pairwise fold changespairwise.fc
Compute pairwise values for a given functionpairwise.fun
Compute pairwise log-fold changespairwise.logfc
Pairwise Moderated t-Testspairwise.mod.t.test
Compute Performance Measures and Scores for Binary ClassificationperfMeasures perfScores
Power calculations for a diagnostic testpower.diagnostic.test
Power calculations for two sample Hsu t testpower.hsu.t.test
Power calculation for comparing two negative binomial ratespower.nb.test
Power calculations for two sample Welch t testpower.welch.t.test
Compute PPV and NPV.predValues
Print Method for Confidence Intervalsprint.confint
Box Plotsqboxplot qboxplot.default qboxplot.formula
Box Plot Statisticsqbxp.stats
Confidence Intervals for QuantilesmadCI medianCI quantileCI
Compute mean of replicated spotsrepMeans
Compute RR, OR, etc.risks
Compute Approximate Confidence Interval for RR.rrCI
Simulate correlated variables.simCorVars
Plot of a similarity matrix.simPlot
Compute SNRiqrSNR medSNR SNR
Sample Size Planning for Developing Classifiers Using High Dimensional Datassize.pcc
Function to compute distances between stringsstringDist
Function to compute similarity scores between stringsstringSim
Plot TSH, fT3 and fT4 with respect to reference range.thyroid
Function to trace backtraceBack
New Transformations for Use with ggplot2 Packageglog10_trans glog2_trans glog_trans neglog10_trans neglog2_trans neglog_breaks neglog_trans scale_x_glog scale_x_glog10 scale_x_glog2 scale_x_neglog scale_x_neglog10 scale_x_neglog2 scale_y_glog scale_y_glog10 scale_y_glog2 scale_y_neglog scale_y_neglog10 scale_y_neglog2
A function for Analysis of VariancetwoWayAnova