R: Miscellaneous Functions from M. Kohl

# Miscellaneous Functions from M. Kohl

## Documentation for package ‘MKmisc’ version 2.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

MKmisc-package | Miscellaneous Functions from M. Kohl.
AUC | Compute AUC
AUC.test | AUC-Test
binomCI | Confidence Intervals for Binomial Proportions
corDist | Correlation Distance Matrix Computation
corPlot | Plot of similarity matrix based on correlation
CV | Compute CV
cvCI | Confidence Intervals for Coefficient of Variation
fiveNS | Five-Number Summaries
glog | Compute Generalized Logarithm
glog10 | Compute Generalized Logarithm
glog10_trans | New Transformations for Use with ggplot2 Package
glog2 | Compute Generalized Logarithm
glog2_trans | New Transformations for Use with ggplot2 Package
glog_trans | New Transformations for Use with ggplot2 Package
heatmapCol | Generate colors for heatmaps
HLgof.test | Hosmer-Lemeshow goodness of fit tests.
hsu.t.test | Hsu Two-Sample t-Test
hsu.t.test.default | Hsu Two-Sample t-Test
hsu.t.test.formula | Hsu Two-Sample t-Test
imputeSD | Impute Standard Deviations for Changes from Baseline
inv.glog | Compute Generalized Logarithm
inv.glog10 | Compute Generalized Logarithm
inv.glog2 | Compute Generalized Logarithm
IQrange | The Interquartile Range
iqrCV | Compute CV
iqrSNR | Compute SNR
madCI | Confidence Intervals for Quantiles
madMatrix | Compute MAD between colums of a matrix or data.frame
madPlot | Plot of similarity matrix based on MAD
meanAD | The Mean Absolute Deviation
medCV | Compute CV
medianCI | Confidence Intervals for Quantiles
medSNR | Compute SNR
melt.long | Transform data.frame to Long Form
mi.t.test | Multiple Imputation Student's t-Test
mi.t.test.default | Multiple Imputation Student's t-Test
MKmisc | Miscellaneous Functions from M. Kohl.
mod.oneway.test | Moderated 1-Way ANOVA
mod.t.test | Moderated t-Test
neglog10_trans | New Transformations for Use with ggplot2 Package
neglog2_trans | New Transformations for Use with ggplot2 Package
neglog_breaks | New Transformations for Use with ggplot2 Package
neglog_trans | New Transformations for Use with ggplot2 Package
normCI | Confidence Intervals for Mean and Standard Deviation
normDiffCI | Confidence Intervals for Difference of Means
oneWayAnova | A function for Analysis of Variance
optCutoff | Compute the Optimal Cutoff for Binary Classification
or2rr | Transform OR to RR
pairwise.auc | Compute pairwise AUCs
pairwise.fc | Compute pairwise fold changes
pairwise.fun | Compute pairwise values for a given function
pairwise.logfc | Compute pairwise log-fold changes
pairwise.mod.t.test | Pairwise Moderated t-Tests
perfMeasures | Compute Performance Measures and Scores for Binary Classification
perfScores | Compute Performance Measures and Scores for Binary Classification
power.diagnostic.test | Power calculations for a diagnostic test
power.hsu.t.test | Power calculations for two sample Hsu t test
power.nb.test | Power calculation for comparing two negative binomial rates
power.welch.t.test | Power calculations for two sample Welch t test
predValues | Compute PPV and NPV.
print.confint | Print Method for Confidence Intervals
qboxplot | Box Plots
qboxplot.default | Box Plots
qboxplot.formula | Box Plots
qbxp.stats | Box Plot Statistics
quantileCI | Confidence Intervals for Quantiles
repMeans | Compute mean of replicated spots
risks | Compute RR, OR, etc.
rrCI | Compute Approximate Confidence Interval for RR.
scale_x_glog | New Transformations for Use with ggplot2 Package
scale_x_glog10 | New Transformations for Use with ggplot2 Package
scale_x_glog2 | New Transformations for Use with ggplot2 Package
scale_x_neglog | New Transformations for Use with ggplot2 Package
scale_x_neglog10 | New Transformations for Use with ggplot2 Package
scale_x_neglog2 | New Transformations for Use with ggplot2 Package
scale_y_glog | New Transformations for Use with ggplot2 Package
scale_y_glog10 | New Transformations for Use with ggplot2 Package
scale_y_glog2 | New Transformations for Use with ggplot2 Package
scale_y_neglog | New Transformations for Use with ggplot2 Package
scale_y_neglog10 | New Transformations for Use with ggplot2 Package
scale_y_neglog2 | New Transformations for Use with ggplot2 Package
simCorVars | Simulate correlated variables.
simPlot | Plot of a similarity matrix.
sIQR | The Interquartile Range
SNR | Compute SNR
ssize.pcc | Sample Size Planning for Developing Classifiers Using High Dimensional Data
stringDist | Function to compute distances between strings
stringSim | Function to compute similarity scores between strings
thyroid | Plot TSH, fT3 and fT4 with respect to reference range.
traceBack | Function to trace back
twoWayAnova | A function for Analysis of Variance