Files in mixOmicsTeam/mixOmics

Omics Data Integration Project

.Rbuildignore

.github/ISSUE_TEMPLATE/bug_report.md

.github/ISSUE_TEMPLATE/config.yml

.github/ISSUE_TEMPLATE/feature_request.md .github/ISSUE_TEMPLATE/other-issue.md

.github/config

.github/workflows/README.yml

.github/workflows/actions.yml

.github/workflows/push2bioc.yml

.gitignore

.travis.yml

CODE_OF_CONDUCT.md

DESCRIPTION

Dockerfile

NAMESPACE

NEWS.md R/LOGOCV.R R/MCV.block.splsda.R R/MCV.spls.R R/S3methods-plot.R R/S3methods-plot.perf.R R/S3methods-plot.perf.pls.R R/S3methods-plot.tune.R R/S3methods-print.R R/auroc.R R/background.predict.R R/bin.color.R R/biplot.R R/block.pls.R R/block.plsda.R R/block.spls.R R/block.splsda.R R/check_entry.R R/cim.R R/cimDiablo.R R/circosPlot.R R/colors.R R/data-Koren.16S.r R/data-breast.TCGA.r R/data-breast.tumors.r R/data-diverse.16S.r R/data-linnerud.r R/data-liver.toxicity.r R/data-multidrug.r R/data-nutrimouse.r R/data-srbct.r R/data-stemcells.r R/data-vac18.r R/data-vac18.simulated.r R/data-yeast.r R/explained_variance.R R/get.confusion_matrix.R R/helpers-plot.R R/ica.def.par.R R/image.tune.rcc.R R/imageMap.R R/imgCor.R R/impute.nipals.R R/internal_graphic.perf.R R/internal_graphicModule.R R/internal_mint.block.R R/internal_mint.block_helpers.R R/internal_predict.DA.R R/internal_wrapper.mint.R R/internal_wrapper.mint.block.R R/ipca.R R/logratio-transformations.R R/mint.block.pls.R R/mint.block.plsda.R R/mint.block.spls.R R/mint.block.splsda.R R/mint.pca.R R/mint.pls.R R/mint.plsda.R R/mint.spls.R R/mint.splsda.R R/mixOmics-package.R R/mixOmics.R R/network.R R/nipals.R R/pca.R R/pcasvd.R R/perf.R R/perf.diablo.R R/perf.mint.splsda.R R/plotArrow.R R/plotDiablo.R R/plotIndiv.R R/plotIndiv.mint.R R/plotIndiv.pca.R R/plotIndiv.pls.R R/plotIndiv.sgcca.R R/plotLoadings.R R/plotMarkers.R R/plotVar.R R/pls.R R/plsda.R R/predict.R R/rcc.R R/roc_utils.R R/selectVar.R R/sipca.R R/spca.R R/spls.R R/splsda.R R/summary.R R/t.test.process.R R/tune.R R/tune.block.splsda.R R/tune.mint.splsda.R R/tune.pca.R R/tune.rcc.R R/tune.spca.R R/tune.spls.R R/tune.spls1.R R/tune.splsda.R R/tune.splslevel.R R/unmap.R R/utils-argument_checkers.R R/utils.R R/vip.R R/withinVariation.R R/wrapper.rgcca.R R/wrapper.sgcca.R R/zz-defunct.R R/zzz.R README.md buildignore/devel/Q2-total.R buildignore/devel/merge-devel.R buildignore/devel/plot.perf-examples.R buildignore/devel/plot.perf.DA-examples.R buildignore/devel/plot.perf.pls-examples.R

codecov.yml

data/Koren.16S.rda

data/breast.TCGA.rda

data/breast.tumors.rda

data/datalist

data/diverse.16S.rda

data/linnerud.rda

data/liver.toxicity.rda

data/multidrug.rda

data/nutrimouse.rda

data/srbct.rda

data/stemcells.rda

data/vac18.rda

data/vac18.simulated.rda

data/yeast.rda

examples/auroc-examples.R examples/background.predict-examples.R examples/biplot-examples.R examples/block.pls-examples.R examples/block.plsda-examples.R examples/block.spls-examples.R examples/block.splsda-examples.R examples/cim-examples.R examples/cimDiablo-examples.R examples/circosPlot-examples.R examples/ipca-examples.R examples/mixOmics-examples.R examples/network-examples.R examples/pca-examples.R examples/perf-examples.R examples/perf.pls-examples.R examples/plot.tune-examples.R examples/plotArrow-examples.R examples/plotIndiv-examples.R examples/plotLoadings-examples.R examples/plotVar-examples.R examples/plsda-examples.R examples/predict-examples.R examples/print-examples.R examples/selectVar-examples.R examples/sipca-examples.R examples/spca-examples.R examples/spls-examples.R examples/splsda-examples.R examples/tune-examples.R examples/tune.block.splsda-examples.R examples/tune.spca-examples.R

inst/CITATION

inst/README-WhatsNew.Rmd inst/README.Rmd

inst/doc/InputFigures/Methods.png

inst/doc/InputFigures/MixOmicsAnalysesV2.png

inst/doc/InputFigures/cheatsheet.png

inst/doc/InputFigures/framework-mixOmics-June2016.jpg

inst/doc/InputFigures/logo-mixomics.jpg

inst/doc/InputFigures/logo-mixomics.png

inst/doc/InputFigures/logo.jpeg

inst/doc/bibliography.bib

inst/fig/MixOmicsFrameworks.png

inst/legacy/NEWS-old

inst/legacy/README

inst/testdata/predict.mint.splsda.rda

man-roxygen/arg/BPPARAM.R man-roxygen/arg/X.list.R man-roxygen/arg/X.matrix.R man-roxygen/arg/Y.matrix.R man-roxygen/arg/all.outputs.R man-roxygen/arg/col.per.group.R man-roxygen/arg/folds.R man-roxygen/arg/logratio.R man-roxygen/arg/max.iter.R man-roxygen/arg/mode.R man-roxygen/arg/multilevel.R man-roxygen/arg/ncomp.R man-roxygen/arg/near.zero.var.R man-roxygen/arg/nrepeat.R man-roxygen/arg/pch.size.R man-roxygen/arg/progressBar.R man-roxygen/arg/scale.R man-roxygen/arg/test.keepX-X.matrix.R man-roxygen/arg/test.keepY.R man-roxygen/arg/tol.R man-roxygen/arg/validation.R man-roxygen/arg/verbose.call.R man-roxygen/description/tune.R man-roxygen/section/folds.R man-roxygen/section/measure-pls.R man-roxygen/section/nrepeat.R man-roxygen/section/t-test-process.R man/Koren.16S.Rd man/S3methods-print.Rd man/auroc.Rd man/background.predict.Rd man/biplot.Rd man/block.pls.Rd man/block.plsda.Rd man/block.spls.Rd man/block.splsda.Rd man/breast.TCGA.Rd man/breast.tumors.Rd man/cim.Rd man/cimDiablo.Rd man/circosPlot.Rd man/colors.Rd man/diverse.16S.Rd man/explained_variance.Rd man/get.confusion_matrix.Rd man/image.tune.rcc.Rd man/imgCor.Rd man/impute.nipals.Rd man/ipca.Rd man/linnerud.Rd man/liver.toxicity.Rd man/logratio-transformations.Rd man/map.Rd man/mat.rank.Rd man/mint.block.pls.Rd man/mint.block.plsda.Rd man/mint.block.spls.Rd man/mint.block.splsda.Rd man/mint.pca.Rd man/mint.pls.Rd man/mint.plsda.Rd man/mint.spls.Rd man/mint.splsda.Rd man/mixOmics-package.Rd man/mixOmics.Rd man/multidrug.Rd man/nearZeroVar.Rd man/network.Rd man/nipals.Rd man/nutrimouse.Rd man/pca.Rd man/perf.Rd man/plot.pca.Rd man/plot.perf.Rd man/plot.perf.pls.Rd man/plot.rcc.Rd man/plot.tune.Rd man/plotArrow.Rd man/plotDiablo.Rd man/plotIndiv.Rd man/plotLoadings.Rd man/plotMarkers.Rd man/plotVar.Rd man/pls.Rd man/plsda.Rd man/predict.Rd man/rcc.Rd man/selectVar.Rd man/sipca.Rd man/spca.Rd man/spls.Rd man/splsda.Rd man/srbct.Rd man/stemcells.Rd man/study_split.Rd man/summary.Rd man/tune.Rd man/tune.block.splsda.Rd man/tune.mint.splsda.Rd man/tune.pca.Rd man/tune.rcc.Rd man/tune.spca.Rd man/tune.spls.Rd man/tune.splsda.Rd man/tune.splslevel.Rd man/unmap.Rd man/vac18.Rd man/vac18.simulated.Rd man/vip.Rd man/withinVariation.Rd man/wrapper.rgcca.Rd man/wrapper.sgcca.Rd man/yeast.Rd man/zz-defunct.Rd

renv.lock

renv/.gitignore

renv/activate.R

renv/settings.dcf

tests/testthat.R tests/testthat/helpers.R tests/testthat/test-auroc.R tests/testthat/test-background.predict.R tests/testthat/test-cim.R tests/testthat/test-circsPlot.R tests/testthat/test-diabolo.R tests/testthat/test-general.DA.R tests/testthat/test-internals-.get.pch.R tests/testthat/test-internals.R tests/testthat/test-mint.block.splsda.R tests/testthat/test-network.R tests/testthat/test-pca.R tests/testthat/test-perf.R tests/testthat/test-perf.diablo.R tests/testthat/test-perf.mint.splsda.R tests/testthat/test-perf.mixo.splsda.R tests/testthat/test-perf.pls.R tests/testthat/test-plotArrow.R tests/testthat/test-plotIndiv.R tests/testthat/test-plotLoadings.R tests/testthat/test-plotVar.R tests/testthat/test-predict.R tests/testthat/test-tune.block.splsda.R tests/testthat/test-tune.mint.splsda.R tests/testthat/test-tune.spca.R tests/testthat/test-tune.spls.R tests/testthat/test-tune.splsda.R tests/testthat/test-verbose.call.R

vignettes/InputFigures/Methods.png

vignettes/InputFigures/MixOmicsAnalysesV2.png

vignettes/InputFigures/cheatsheet.png

vignettes/InputFigures/framework-mixOmics-June2016.jpg

vignettes/InputFigures/logo-mixomics.jpg

vignettes/InputFigures/logo-mixomics.png

vignettes/InputFigures/logo.jpeg

vignettes/bibliography.bib

vignettes/header.html

vignettes/vignette.Rmd

mixOmicsTeam/mixOmics documentation built on Oct. 26, 2023, 6:48 a.m.