├── .Rbuildignore ├── .github ├── .gitignore └── workflows │ └── pkgdown.yaml ├── .gitignore ├── .travis.yml ├── DESCRIPTION ├── NAMESPACE ├── NEWS.md ├── R ├── Cox.plot.R ├── KM.plot.R ├── KMg.plot.R ├── bar.plot.R ├── bar2.plot.R ├── box.plot.R ├── cGroupsGUI.R ├── cGroupsWUI.R ├── cbind.createTable.R ├── chisq.test2.R ├── combn2.R ├── compare.i.R ├── compareGroups.R ├── compareGroups.fit.R ├── compareSNPs.R ├── confinterval.R ├── createTable.R ├── descrTable.R ├── descrip.R ├── descripSurv.R ├── epitools_functions.R ├── export2csv.R ├── export2html.R ├── export2latex.R ├── export2latex.cbind.createTable.R ├── export2latex.createTable.R ├── export2md.R ├── export2mdcbind.R ├── export2mdword.R ├── export2mdwordcbind.R ├── export2pdf.R ├── export2word.R ├── export2xls.R ├── flip.R ├── format2.R ├── formula.compareGroups.R ├── getResults.R ├── logrank.pval.R ├── missingTable.R ├── norm.plot.R ├── padjustCompareGroups.R ├── plot.compareGroups.R ├── plot.createTable.R ├── prepare.r ├── print.cbind.createTable.R ├── print.compareGroups.R ├── print.compareSNPs.r ├── print.createTable.R ├── print.summary.compareGroups.R ├── print.summary.createTable.r ├── printTable.R ├── radiograph.R ├── rbind.compareGroups.R ├── rbind.createTable.R ├── report.R ├── signifdec.R ├── signifdec.i.R ├── snpQC.R ├── strataTable.R ├── summ.i.R ├── summary.compareGroups.R ├── summary.createTable.R ├── table.i.R ├── trim.R ├── update.compareGroups.R ├── update.descrTable.R ├── update.formula2.R ├── varinfo.R ├── varinfo.compareGroups.R ├── varinfo.createTable.R ├── z.[compareGroups.R ├── z[.cbind.createTable.R ├── z[.createTable.R ├── z[.rbind.compareGroups.R └── z[.rbind.createTable.R ├── README.Rmd ├── README.md ├── _config.yml ├── _pkgdown.yml ├── compareGroups.Rproj ├── compareGroups_vignette.html ├── data ├── SNPs.rda └── regicor.rda ├── docs ├── .nojekyll ├── 404.html ├── apple-touch-icon-120x120.png ├── apple-touch-icon-152x152.png ├── apple-touch-icon-180x180.png ├── apple-touch-icon-60x60.png ├── apple-touch-icon-76x76.png ├── apple-touch-icon.png ├── articles │ ├── compareGroups_vignette.html │ ├── compareGroups_vignette_files │ │ ├── kePrint-0.0.1 │ │ │ └── kePrint.js │ │ └── lightable-0.0.1 │ │ │ └── lightable.css │ ├── example1.html │ ├── example1_files │ │ ├── kePrint-0.0.1 │ │ │ └── kePrint.js │ │ └── lightable-0.0.1 │ │ │ └── lightable.css │ ├── example2.html │ ├── example2_files │ │ └── figure-html │ │ │ ├── unnamed-chunk-6-1.png │ │ │ ├── unnamed-chunk-7-1.png │ │ │ ├── unnamed-chunk-8-1.png │ │ │ └── unnamed-chunk-9-1.png │ ├── figures │ │ ├── GUI │ │ │ ├── or_rr.png │ │ │ ├── step1_load_data.PNG │ │ │ ├── step2_select_row_variables.png │ │ │ ├── step3_select_group_variable.png │ │ │ ├── step4_hide_categ.png │ │ │ ├── step5_select_method.png │ │ │ ├── step6_subsetting.png │ │ │ ├── step7_report_options.png │ │ │ ├── step8_export_table.png │ │ │ └── toevent.png │ │ ├── bivar │ │ │ ├── age.png │ │ │ ├── sex.png │ │ │ └── tmain.png │ │ ├── bivarsurv │ │ │ ├── age.png │ │ │ └── sex.png │ │ ├── classes.png │ │ ├── example1docx.png │ │ ├── example1pdf.png │ │ ├── example1xlsx.png │ │ └── univar │ │ │ ├── age.png │ │ │ ├── sex.png │ │ │ └── tmain.png │ ├── index.html │ └── wui.html ├── authors.html ├── deps │ ├── bootstrap-5.3.1 │ │ ├── bootstrap.bundle.min.js │ │ ├── bootstrap.bundle.min.js.map │ │ └── bootstrap.min.css │ ├── bootstrap-toc-1.0.1 │ │ └── bootstrap-toc.min.js │ ├── clipboard.js-2.0.11 │ │ └── clipboard.min.js │ ├── data-deps.txt │ ├── font-awesome-6.5.2 │ │ ├── css │ │ │ ├── all.css │ │ │ ├── all.min.css │ │ │ ├── v4-shims.css │ │ │ └── v4-shims.min.css │ │ └── webfonts │ │ │ ├── fa-brands-400.ttf │ │ │ ├── fa-brands-400.woff2 │ │ │ ├── fa-regular-400.ttf │ │ │ ├── fa-regular-400.woff2 │ │ │ ├── fa-solid-900.ttf │ │ │ ├── fa-solid-900.woff2 │ │ │ ├── fa-v4compatibility.ttf │ │ │ └── fa-v4compatibility.woff2 │ ├── headroom-0.11.0 │ │ ├── headroom.min.js │ │ └── jQuery.headroom.min.js │ ├── jquery-3.6.0 │ │ ├── jquery-3.6.0.js │ │ ├── jquery-3.6.0.min.js │ │ └── jquery-3.6.0.min.map │ └── search-1.0.0 │ │ ├── autocomplete.jquery.min.js │ │ ├── fuse.min.js │ │ └── mark.min.js ├── favicon-16x16.png ├── favicon-32x32.png ├── favicon-96x96.png ├── favicon.ico ├── favicon.svg ├── index.html ├── katex-auto.js ├── lightswitch.js ├── link.svg ├── logo.png ├── news │ └── index.html ├── pkgdown.js ├── pkgdown.yml ├── reference │ ├── Cox.plot.html │ ├── KM.plot.html │ ├── KMg.plot.html │ ├── SNPHWE2.html │ ├── SNPs.html │ ├── bar.plot.html │ ├── bar2.plot.html │ ├── box.plot.html │ ├── cGroupsGUI.html │ ├── cGroupsWUI.html │ ├── chisq.test2.html │ ├── combn2.html │ ├── compare.i.html │ ├── compareGroups-internal.html │ ├── compareGroups-package.html │ ├── compareGroups.fit.html │ ├── compareGroups.html │ ├── compareSNPs.html │ ├── confinterval.html │ ├── createTable.html │ ├── descrTable.html │ ├── descrip.html │ ├── descripSurv.html │ ├── epitable.html │ ├── export2csv.html │ ├── export2html.html │ ├── export2latex.cbind.createTable.html │ ├── export2latex.createTable.html │ ├── export2latex.html │ ├── export2md.html │ ├── export2mdcbind.html │ ├── export2mdword.html │ ├── export2mdwordcbind.html │ ├── export2pdf.html │ ├── export2word.html │ ├── export2xls.html │ ├── figures │ │ ├── WUI.png │ │ ├── baseplot.png │ │ ├── exampleHTML.png │ │ ├── examplePDF.pdf │ │ ├── examplePDF.png │ │ ├── examplestr.png │ │ ├── logo.png │ │ ├── logo_regicor.jpg │ │ ├── plot1.png │ │ ├── plot2.png │ │ ├── prbb.jpg │ │ ├── sex.pdf │ │ ├── subplot.png │ │ ├── var1age.pdf │ │ ├── var1age.png │ │ ├── var1sex.pdf │ │ ├── var1sex.png │ │ ├── varage.pdf │ │ ├── varage.png │ │ ├── varsex.pdf │ │ └── varsex.png │ ├── flip.html │ ├── format2.html │ ├── formula.compareGroups.html │ ├── getResults.html │ ├── index.html │ ├── logrank.pval.html │ ├── missingTable.html │ ├── norm.plot.html │ ├── oddsratio.fisher.html │ ├── oddsratio.html │ ├── oddsratio.midp.html │ ├── oddsratio.small.html │ ├── oddsratio.wald.html │ ├── or.midp.html │ ├── ormidp.test.html │ ├── padjustCompareGroups.html │ ├── plot.compareGroups.html │ ├── plot.createTable.html │ ├── prepare.html │ ├── print.compareGroups.html │ ├── print.compareSNPs.html │ ├── print.createTable.html │ ├── print.summary.compareGroups.html │ ├── print.summary.createTable.html │ ├── printTable.html │ ├── radiograph.html │ ├── regicor.html │ ├── reorder.snp2.html │ ├── report.html │ ├── riskratio.boot.html │ ├── riskratio.html │ ├── riskratio.small.html │ ├── riskratio.wald.html │ ├── setupSNP2.html │ ├── signifdec.html │ ├── signifdec.i.html │ ├── snp2.html │ ├── snpQC.html │ ├── strataTable.html │ ├── summ.i.html │ ├── summary.compareGroups.html │ ├── summary.createTable.html │ ├── summary.snp2.html │ ├── tab2by2.test.html │ ├── table.i.html │ ├── table.margins.html │ ├── trim.html │ ├── udpate.formula2.html │ ├── update.compareGroups.html │ ├── update.formula2.html │ ├── varinfo.compareGroups.html │ ├── varinfo.createTable.html │ └── varinfo.html ├── search.json ├── site.webmanifest ├── sitemap.xml ├── web-app-manifest-192x192.png └── web-app-manifest-512x512.png ├── index.Rmd ├── index.md ├── index_files ├── figure-html │ ├── unnamed-chunk-7-1.png │ └── unnamed-chunk-7-2.png ├── figure-markdown_github │ ├── unnamed-chunk-7-1.png │ └── unnamed-chunk-7-2.png └── figure-markdown_strict │ ├── unnamed-chunk-7-1.png │ └── unnamed-chunk-7-2.png ├── inst ├── CITATION ├── app │ ├── flipBox.R │ ├── global.R │ ├── helpfiles │ │ ├── DataPanelhelp.md │ │ ├── PlotGroupshelp.md │ │ ├── PlotVariableshelp.md │ │ ├── SNPsGroupshelp.md │ │ ├── SNPsOptionshelp.md │ │ ├── SNPsPanelhelp.md │ │ ├── SNPsVariableshelp.md │ │ ├── decimalshelp.md │ │ ├── descrTablehelp.md │ │ ├── filterhelp.md │ │ ├── formathelp.md │ │ ├── hidehelp.md │ │ ├── labelshelp.md │ │ ├── loadhelp.md │ │ ├── ratiohelp.md │ │ ├── recodehelp.md │ │ ├── responsehelp.md │ │ ├── selecthelp.md │ │ ├── showhelp.md │ │ ├── stratahelp.md │ │ ├── subsetDataTable.md │ │ ├── subsethelp.md │ │ └── typehelp.md │ ├── home.md │ ├── makeExamples.R │ ├── server.R │ ├── tableTemp.Rmd │ ├── ui.R │ └── www │ │ ├── ReGiCor.jpg │ │ ├── blank.png │ │ ├── cglogo.png │ │ ├── ciberCV.png │ │ ├── datarus.jpg │ │ ├── examples │ │ ├── example1.png │ │ ├── example2.png │ │ ├── example3.png │ │ ├── example4.png │ │ ├── example5.png │ │ ├── example6.png │ │ ├── example7.png │ │ ├── example8.png │ │ └── example8.txt │ │ ├── images │ │ └── loading.gif │ │ ├── imim.png │ │ ├── logo-cibercv.png │ │ ├── logo-ciberesp.png │ │ ├── logo.png │ │ ├── logo_imim_capsalera.gif │ │ └── regicor_logo125.png └── exdata │ ├── regicor.csv │ ├── regicor.dat │ ├── regicor.sav │ └── regicor.xlsx ├── man ├── SNPs.Rd ├── cGroupsGUI.Rd ├── cGroupsWUI.Rd ├── compareGroups-internal.Rd ├── compareGroups-package.Rd ├── compareGroups.Rd ├── compareSNPs.Rd ├── createTable.Rd ├── descrTable.Rd ├── export2csv.Rd ├── export2html.Rd ├── export2latex.Rd ├── export2md.Rd ├── export2pdf.Rd ├── export2word.Rd ├── export2xls.Rd ├── figures │ ├── WUI.png │ ├── baseplot.png │ ├── exampleHTML.png │ ├── examplePDF.pdf │ ├── examplePDF.png │ ├── examplestr.png │ ├── logo.png │ ├── logo_regicor.jpg │ ├── plot1.png │ ├── plot2.png │ ├── prbb.jpg │ ├── sex.pdf │ ├── subplot.png │ ├── var1age.pdf │ ├── var1age.png │ ├── var1sex.pdf │ ├── var1sex.png │ ├── varage.pdf │ ├── varage.png │ ├── varsex.pdf │ └── varsex.png ├── getResults.Rd ├── missingTable.Rd ├── padjustCompareGroups.Rd ├── printTable.Rd ├── radiograph.Rd ├── regicor.Rd ├── report.Rd ├── strataTable.Rd └── varinfo.Rd ├── pkgdown ├── _pkgdown.yml └── favicon │ ├── apple-touch-icon-120x120.png │ ├── apple-touch-icon-152x152.png │ ├── apple-touch-icon-180x180.png │ ├── apple-touch-icon-60x60.png │ ├── apple-touch-icon-76x76.png │ ├── apple-touch-icon.png │ ├── favicon-16x16.png │ ├── favicon-32x32.png │ ├── favicon-96x96.png │ ├── favicon.ico │ ├── favicon.svg │ ├── site.webmanifest │ ├── web-app-manifest-192x192.png │ └── web-app-manifest-512x512.png └── 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