Merge branch 'feature/T27929-ProvideVisualizationOverview' into develop
248ff75fd785
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Merge branch 'feature/T27929-ProvideVisualizationOverview' into develop

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eisenman	Authored on Nov 16 2020, 5:49 PM
eisenman	Pushed on Nov 16 2020, 5:49 PM

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rCHALLENGER5ee4b2aa921e: Add man pages
rCHALLENGERbbcc0348d83b: Merge branch 'feature/T27278-DocumentFunctions' into develop

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eisenman committed rCHALLENGER248ff75fd785: Merge branch 'feature/T27929-ProvideVisualizationOverview' into develop (authored by eisenman).Nov 16 2020, 5:49 PM

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5ee4b2aa921e Add man pages
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5ff8bf846b1d Cite paper
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99ffad44f9e7 Clean up
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31a95a501028 Add documentation for cluster dendrogram
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2c54ff2dfae3 Reference file after rename
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701786916e7e Rename reportMultiple.Rmd to report.Rmd
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85d6351208ab Add documentation for significance map
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1e7fcd95307f Rename wrapper.R to rankingMethods.R
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ddcfcd69bf81 Add documentation for consensus
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9a3447d1eeb0 Rename significancePlot.R to significanceMap.R
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1b3e79568328 Add documentation for violin plot
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1bbb649283e5 Add documentation for stability plot functions
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082a9fd7ed02 Test that stabilityByAlgorithm returns the correct number of plots
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1b86559604af Test that blob plot for visualizing ranking stability across tasks returns one…
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4bdc828b3078 Add documentation for methods plot
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c7be8a865046 Rename visualization.R to stability.R
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a769bf8260b3 Add documentation for ranking heatmap
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90f393abb2a8 Add documentation for podium plot
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6883574b5f91 Add documentation for boxplot
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1657d032791d Fix links to other packages
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59b715df4091 Remove duplicate code
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fb73906f4c6b Add characterization of tasks section
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73290e3fd09f Specify ordering argument
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3a4167dbd3c2 Add characterization of algorithms section
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236239b4eb2c Add vignette for providing an overview of visualizations and corresponding plot…
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7795fcb0ee1a Remove duplicate blank
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c329792a32de Move example data to extdata directory
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Changes (50)

Path

Size

	rankingMethods.R
	wrapper.R

report.R

	significanceMap.R
	significancePlot.R

significancePlot.R

	stability.R
	visualization.R

inst/

appdir/

characterizationOfAlgorithmsBootstrapping.Rmd

	report.Rmd
	reportMultiple.Rmd

reportMultiple.Rmd

extdata

	inst/	extdata/

data_matrix.csv

man

aggregate.challenge.Rd

aggregateThenRank.Rd

as.challenge.Rd

bootstrap.ranked.list.Rd

boxplot.ranked.list.Rd

consensus.ranked.list.Rd

dendrogram.ranked.list.Rd

methodsplot.challenge.Rd

podium.challenge.Rd

podium.ranked.list.Rd

rankThenAggregate.Rd

rankingHeatmap.challenge.Rd

rankingHeatmap.ranked.list.Rd

report.bootstrap.list.Rd

report.ranked.list.Rd

significanceMap.ranked.list.Rd

stability.ranked.list.Rd

stabilityByAlgorithm.bootstrap.list.Rd

stabilityByTask.bootstrap.list.Rd

subset.bootstrap.list.Rd

subset.ranked.list.Rd

testThenRank.Rd

violin.bootstrap.list.Rd

tests/

testthat/

test-blobPlotStabilityAcrossTasks.R

test-blobPlotStabilityByAlgorithm.R

	test-stackedFrequencyPlotStabilityByAlgorithm.R
	test-networkPlot.R

vignettes/

visualizations.Rmd

rCHALLENGER248ff75fd785

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DESCRIPTION

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R/S3.R

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R/boxplot.R

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R/consensus.R

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R/dendrogram.R

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R/methodsplot.R

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R/podium.R

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R/rankingHeatmap.R

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R/rankingMethods.R

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R/report.R

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R/significanceMap.R

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R/significancePlot.R

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R/stability.R

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R/violin.R

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R/visualization.R

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R/wrapper.R

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data_matrix.csv

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inst/appdir/characterizationOfAlgorithmsBootstrapping.Rmd

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inst/appdir/report.Rmd

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inst/appdir/reportMultiple.Rmd

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inst/extdata/data_matrix.csv

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man/aggregate.challenge.Rd

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man/aggregateThenRank.Rd

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man/as.challenge.Rd

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man/bootstrap.ranked.list.Rd

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man/boxplot.ranked.list.Rd

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man/consensus.ranked.list.Rd

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man/dendrogram.ranked.list.Rd

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man/methodsplot.challenge.Rd

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man/podium.challenge.Rd

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man/podium.ranked.list.Rd

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man/rankThenAggregate.Rd

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man/rankingHeatmap.challenge.Rd

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man/rankingHeatmap.ranked.list.Rd

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man/report.bootstrap.list.Rd

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man/report.ranked.list.Rd

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man/significanceMap.ranked.list.Rd

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man/stability.ranked.list.Rd

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man/stabilityByAlgorithm.bootstrap.list.Rd

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man/stabilityByTask.bootstrap.list.Rd

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man/subset.bootstrap.list.Rd

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man/subset.ranked.list.Rd

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man/testThenRank.Rd

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man/violin.bootstrap.list.Rd

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tests/testthat/test-blobPlotStabilityAcrossTasks.R

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tests/testthat/test-blobPlotStabilityByAlgorithm.R

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tests/testthat/test-stackedFrequencyPlotStabilityByAlgorithm.R

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vignettes/visualizations.Rmd

Merge branch 'feature/T27929-ProvideVisualizationOverview' into develop248ff75fd785Actions

Description

Details

Event Timeline

Merged Changes

Changes (50)

rCHALLENGER248ff75fd785

DESCRIPTION

R/S3.R

R/boxplot.R

R/consensus.R

R/dendrogram.R

R/methodsplot.R

R/podium.R

R/rankingHeatmap.R

R/rankingMethods.R

R/report.R

R/significanceMap.R

R/significancePlot.R

R/stability.R

R/violin.R

R/visualization.R

R/wrapper.R

data_matrix.csv

inst/appdir/characterizationOfAlgorithmsBootstrapping.Rmd

inst/appdir/report.Rmd

inst/appdir/reportMultiple.Rmd

inst/extdata/data_matrix.csv

man/aggregate.challenge.Rd

man/aggregateThenRank.Rd

man/as.challenge.Rd

man/bootstrap.ranked.list.Rd

man/boxplot.ranked.list.Rd

man/consensus.ranked.list.Rd

man/dendrogram.ranked.list.Rd

man/methodsplot.challenge.Rd

man/podium.challenge.Rd

man/podium.ranked.list.Rd

man/rankThenAggregate.Rd

man/rankingHeatmap.challenge.Rd

man/rankingHeatmap.ranked.list.Rd

man/report.bootstrap.list.Rd

man/report.ranked.list.Rd

man/significanceMap.ranked.list.Rd

man/stability.ranked.list.Rd

man/stabilityByAlgorithm.bootstrap.list.Rd

man/stabilityByTask.bootstrap.list.Rd

man/subset.bootstrap.list.Rd

man/subset.ranked.list.Rd

man/testThenRank.Rd

man/violin.bootstrap.list.Rd

tests/testthat/test-blobPlotStabilityAcrossTasks.R

tests/testthat/test-blobPlotStabilityByAlgorithm.R

tests/testthat/test-stackedFrequencyPlotStabilityByAlgorithm.R

vignettes/visualizations.Rmd

Merge branch 'feature/T27929-ProvideVisualizationOverview' into develop
248ff75fd785
Actions