scmamp: Statistical Comparison of Multiple Algorithms in Multiple Problems
Version 0.2.55

Given a matrix with results of different algorithms for different problems, the package uses statistical tests and corrections to assess the differences between algorithms.

AuthorBorja Calvo [aut, cre], Guzman Santafe [aut]
Date of publication2016-10-21 12:28:46
MaintainerBorja Calvo <borja.calvo@ehu.eus>
LicenseGPL-2
Version0.2.55
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("scmamp")

Getting started

README.md
Data loading and manipulation with scmamp
Statistical Assessment of the Differences

Popular man pages

adjustBergmannHommel: Bergmann and Hommel dynamic correction of p-values.
adjustShaffer: Shaffer's correction of p-values in pairwise comparisons. .
contrastEstimationMatrix: Contrast estimation based on medians
friedmanAlignedRanksTest: Friedman's Aligned Ranks test
imanDavenportTest: Iman Davenport's modification of Friedman's test
plotCD: Critical difference plot
postHocTest: Post hoc tests for multiple comparison analises
See all...

All man pages Function index File listing

Man pages

adjustBergmannHommel: Bergmann and Hommel dynamic correction of p-values.
adjustFinner: Finner correction of p-values
adjustHolland: Holland correction of p-values.
adjustLi: Li correction of p-values.
adjustRom: Rom correction of p-values
adjustShaffer: Shaffer's correction of p-values in pairwise comparisons. .
anovaTest: ANOVA test for multiple comparisons
booleanMatrix: Creation of boolean matrices for highlighting results
contrastEstimationMatrix: Contrast estimation based on medians
customPost: Function to use custom tests to perform post hoc comparisons.
data.blum.2015: Comparison of optimization algorithms in Blum _et al._ (2015)
data.gh.2008: Example in Garcia and Herrera (2008)
data.gh.2010: Example in Garcia and Herrera (2010)
drawAlgorithmGraph: Hypotheses represented as a graph
exhaustiveSets: Complete set of exhaustive sets.
filterData: Expression based row filtering
friedmanAlignedRanksPost: Friedman's Aligned Ranks post hoc raw p-values
friedmanAlignedRanksTest: Friedman's Aligned Ranks test
friedmanPost: Friedman's post hoc raw p-values
friedmanTest: Friedman's test
imanDavenportTest: Iman Davenport's modification of Friedman's test
multipleComparisonTest: Tests for multiple comparisons
nemenyiTest: Nemenyi test
plotCD: Critical difference plot
plotDensities: Kernel based density estimation of the samples
plotPvalues: Plotting the p-value matrix
plotRanking: Ranking Plots
postHocTest: Post hoc tests for multiple comparison analises
qqplotGaussian: Gaussian distribution quantile-quantile plot
quadePost: Quade post hoc raw p-values
quadeTest: Quade's test
rankMatrix: Get the ranking matrix.
readComparisonDir: Read data from a directory of comparison-like files
readComparisonFile: Read data from a comparison file
readExperimentDir: Read data from an experiment-like files in a directory
readExperimentFile: Read data from an experiment-like file
scmamp: Statistical comparison of multiple algorithms
summarizeData: Summarization of data
tukeyPost: Tukey post hoc test for ANOVA.
tukeyTest: Tukey test
wilcoxonSignedTest: Wilcoxon signed-rank est
writeTabular: Write a table in LaTeX format

Functions

adjustBergmannHommel Man page Source code
adjustFinner Man page Source code
adjustHolland Man page Source code
adjustLi Man page Source code
adjustRom Man page Source code
adjustShaffer Man page Source code
anovaTest Man page Source code
booleanMatrix Man page Source code
buildPvalMatrix Source code
computeSubdivisions Source code
contrastEstimationMatrix Man page Source code
correctForMonotocity Source code
correctPValues Source code
countRecursively Source code
customPost Man page Source code
data.blum.2015 Man page
data.gh.2008 Man page
data.gh.2010 Man page
drawAlgorithmGraph Man page Source code
exhaustiveSets Man page Source code
filterData Man page Source code
friedmanAlignedRanksPost Man page Source code
friedmanAlignedRanksTest Man page Source code
friedmanPost Man page Source code
friedmanTest Man page Source code
generatePairs Source code
getNemenyiCD Source code
imanDavenportTest Man page Source code
megeSets Source code
multipleComparisonTest Man page Source code
nemenyiTest Man page Source code
partition Source code
plotCD Man page Source code
plotDensities Man page Source code
plotPvalues Man page Source code
plotRanking Man page Source code
postHocTest Man page Source code
printCell Source code
processCompFile Source code
processControlColumn Source code
processExpFile Source code
processExperimentMatrix Source code
processTableRow Source code
qqplotGaussian Man page Source code
quadePost Man page Source code
quadeTest Man page Source code
rankMatrix Man page Source code
readComparisonDir Man page Source code
readComparisonFile Man page Source code
readExperimentDir Man page Source code
readExperimentFile Man page Source code
runPostHoc Source code
scmamp Man page
scmamp-package Man page
setUpperBound Source code
summarizeData Man page Source code
tukeyPost Man page Source code
tukeyTest Man page Source code
wilcoxonSignedTest Man page Source code
writeTabular Man page Source code

Files

inst
inst/CITATION
inst/loading_tests
inst/loading_tests/comparison_files
inst/loading_tests/comparison_files/rgg_size_1000_r_0.094.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.036.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.143.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.146.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.161.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.048.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.096.out
inst/loading_tests/comparison_files/rgg_size_1000_r_0.058.out
inst/loading_tests/comparison_files/rgg_size_1000_r_0.134.out
inst/loading_tests/comparison_files/rgg_size_1000_r_0.049.out
inst/loading_tests/comparison_files/rgg_size_1000_r_0.103.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.060.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.164.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.084.out
inst/loading_tests/comparison_files/rgg_size_1000_r_0.067.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.140.out
inst/loading_tests/comparison_files/rgg_size_1000_r_0.112.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.072.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.169.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.024.out
inst/loading_tests/comparison_files/rgg_size_1000_r_0.076.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.120.out
inst/loading_tests/comparison_files/rgg_size_1000_r_0.085.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.152.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.108.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.155.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.149.out
inst/loading_tests/comparison_files/rgg_size_5000_r_0.134.out
inst/loading_tests/comparison_files/rgg_size_100_r_0.158.out
inst/loading_tests/comparison_files/rgg_size_1000_r_0.121.out
inst/loading_tests/rgg_complete_experiment.out
inst/loading_tests/experiment_files
inst/loading_tests/experiment_files/rgg_size_100_r_0.169_Turau.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.108_Rand2.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.120_Rand1.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.067_Turau.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.096_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.158_Turau.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.146_Shukla.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.024_Ikeda.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.036_Shukla.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.161_Rand1.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.164_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.072_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.058_Rand2.out
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inst/loading_tests/experiment_files/rgg_size_5000_r_0.108_Rand1.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.152_Rand2.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.084_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.146_FrogMIS.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.140_Shukla.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.152_Turau.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.024_Rand2.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.076_Ikeda.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.060_Rand1.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.161_Shukla.out
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inst/loading_tests/experiment_files/rgg_size_1000_r_0.103_FrogMIS.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.143_Rand2.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.134_Rand2.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.067_FrogMIS.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.036_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.067_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.103_Turau.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.146_Turau.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.169_Rand1.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.121_Turau.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.048_Rand1.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.076_Rand1.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.112_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.048_FrogCOL.out
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inst/loading_tests/experiment_files/rgg_size_5000_r_0.060_Rand2.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.134_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.143_Shukla.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.134_Shukla.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.084_Shukla.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.036_FrogMIS.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.076_Rand2.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.096_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.134_Turau.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.048_Rand2.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.169_FrogMIS.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.120_Ikeda.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.155_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.024_FrogMIS.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.143_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.169_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.096_Shukla.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.084_Rand2.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.049_FruitFly.out
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inst/loading_tests/experiment_files/rgg_size_100_r_0.169_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.155_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.161_Turau.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.134_Rand1.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.140_Rand2.out
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inst/loading_tests/experiment_files/rgg_size_100_r_0.149_Rand1.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.169_Rand2.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.108_Turau.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.036_Turau.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.084_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.169_Ikeda.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.121_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.149_Turau.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.094_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.164_FrogMIS.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.085_Rand2.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.024_FrogCOL.out
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inst/loading_tests/experiment_files/rgg_size_1000_r_0.085_Ikeda.out
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inst/loading_tests/experiment_files/rgg_size_5000_r_0.048_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.085_FrogCOL.out
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inst/loading_tests/experiment_files/rgg_size_100_r_0.140_FrogMIS.out
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inst/loading_tests/experiment_files/rgg_size_100_r_0.143_Ikeda.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.096_Turau.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.112_Turau.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.146_Rand2.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.067_Rand1.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.048_Turau.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.164_Rand1.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.120_Turau.out
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inst/loading_tests/experiment_files/rgg_size_1000_r_0.121_FruitFly.out
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inst/loading_tests/experiment_files/rgg_size_5000_r_0.036_Rand1.out
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inst/loading_tests/experiment_files/rgg_size_100_r_0.161_Ikeda.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.060_Turau.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.134_Turau.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.072_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.072_Turau.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.049_Rand1.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.103_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.049_Turau.out
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inst/loading_tests/experiment_files/rgg_size_1000_r_0.112_Rand1.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.094_FrogCOL.out
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inst/loading_tests/experiment_files/rgg_size_5000_r_0.108_FrogCOL.out
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inst/loading_tests/experiment_files/rgg_size_5000_r_0.036_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.024_Turau.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.164_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.112_Ikeda.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.134_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.155_Turau.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.149_Shukla.out
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inst/loading_tests/experiment_files/rgg_size_1000_r_0.058_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_1000_r_0.134_FrogMIS.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.134_Ikeda.out
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inst/loading_tests/experiment_files/rgg_size_1000_r_0.076_FrogCOL.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.072_Rand1.out
inst/loading_tests/experiment_files/rgg_size_100_r_0.155_Shukla.out
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inst/loading_tests/experiment_files/rgg_size_1000_r_0.076_FruitFly.out
inst/loading_tests/experiment_files/rgg_size_5000_r_0.072_Shukla.out
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inst/loading_tests/experiment_files/rgg_size_100_r_0.152_FrogCOL.out
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inst/loading_tests/experiment_files/rgg_size_5000_r_0.108_FrogMIS.out
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inst/loading_tests/experiment_files/rgg_size_100_r_0.155_Rand2.out
inst/loading_tests/rgg_complete_comparison.out
inst/doc
inst/doc/Statistical_assessment_of_the_differences.html
inst/doc/Data_loading_and_manipulation.Rmd
inst/doc/Data_loading_and_manipulation.R
inst/doc/Statistical_assessment_of_the_differences.R
inst/doc/Data_loading_and_manipulation.html
inst/doc/Statistical_assessment_of_the_differences.Rmd
NAMESPACE
data
data/data_gh_2008.RData
data/data_blum_2015.RData
data/datalist
data/data_gh_2010.RData
R
R/plotting.R
R/sysdata.rda
R/post_hoc.R
R/latex.R
R/data_manipulation.R
R/scmamp.R
R/loading_functions.R
R/tests.R
vignettes
vignettes/refs.bib
vignettes/Data_loading_and_manipulation.Rmd
vignettes/Statistical_assessment_of_the_differences.Rmd
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/readComparisonDir.Rd
man/friedmanAlignedRanksPost.Rd
man/scmamp.Rd
man/adjustHolland.Rd
man/friedmanAlignedRanksTest.Rd
man/anovaTest.Rd
man/adjustShaffer.Rd
man/rankMatrix.Rd
man/imanDavenportTest.Rd
man/readExperimentFile.Rd
man/adjustBergmannHommel.Rd
man/tukeyPost.Rd
man/quadeTest.Rd
man/data.blum.2015.Rd
man/quadePost.Rd
man/customPost.Rd
man/friedmanPost.Rd
man/qqplotGaussian.Rd
man/postHocTest.Rd
man/contrastEstimationMatrix.Rd
man/data.gh.2010.Rd
man/writeTabular.Rd
man/nemenyiTest.Rd
man/multipleComparisonTest.Rd
man/plotDensities.Rd
man/drawAlgorithmGraph.Rd
man/plotRanking.Rd
man/plotPvalues.Rd
man/wilcoxonSignedTest.Rd
man/exhaustiveSets.Rd
man/adjustFinner.Rd
man/filterData.Rd
man/readComparisonFile.Rd
man/friedmanTest.Rd
man/summarizeData.Rd
man/readExperimentDir.Rd
man/plotCD.Rd
man/tukeyTest.Rd
man/booleanMatrix.Rd
man/data.gh.2008.Rd
man/adjustRom.Rd
man/adjustLi.Rd
scmamp documentation built on May 19, 2017, 10:42 a.m.

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