├── .gitignore ├── .idea ├── .name ├── compiler.xml ├── libraries │ ├── Maven__au_com_bytecode_opencsv_opencsv_1_8.xml │ ├── Maven__com_github_fommil_jniloader_1_1.xml │ ├── Maven__com_github_fommil_netlib_core_1_1_2.xml │ ├── Maven__com_github_fommil_netlib_native_ref_java_1_1.xml │ ├── Maven__com_github_fommil_netlib_native_system_java_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_ref_linux_armhf_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_ref_linux_i686_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_ref_linux_x86_64_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_ref_osx_x86_64_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_ref_win_i686_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_ref_win_x86_64_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_system_linux_armhf_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_system_linux_i686_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_system_linux_x86_64_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_system_osx_x86_64_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_system_win_i686_natives_1_1.xml │ ├── Maven__com_github_fommil_netlib_netlib_native_system_win_x86_64_natives_1_1.xml │ ├── Maven__com_sun_codemodel_codemodel_2_6.xml │ ├── Maven__commons_logging_commons_logging_1_1_1.xml │ ├── Maven__dom4j_dom4j_1_6_1.xml │ ├── Maven__joda_time_joda_time_2_0.xml │ ├── Maven__net_java_dev_swing_layout_swing_layout_1_0_2.xml │ ├── Maven__net_sourceforge_f2j_arpack_combined_all_0_1.xml │ ├── Maven__org_apache_commons_commons_compress_1_4_1.xml │ ├── Maven__org_apache_commons_commons_math_2_2.xml │ ├── Maven__org_apache_commons_commons_vfs2_2_0.xml │ ├── Maven__org_apache_geronimo_specs_geronimo_stax_api_1_0_spec_1_0.xml │ ├── Maven__org_apache_maven_scm_maven_scm_api_1_4.xml │ ├── Maven__org_apache_maven_scm_maven_scm_provider_svn_commons_1_4.xml │ ├── Maven__org_apache_maven_scm_maven_scm_provider_svnexe_1_4.xml │ ├── Maven__org_apache_pdfbox_fontbox_2_0_9.xml │ ├── Maven__org_apache_pdfbox_pdfbox_2_0_9.xml │ ├── Maven__org_apache_poi_poi_3_7.xml │ ├── Maven__org_apache_poi_poi_ooxml_3_7.xml │ ├── Maven__org_apache_poi_poi_ooxml_schemas_3_7.xml │ ├── Maven__org_apache_xmlbeans_xmlbeans_2_3_0.xml │ ├── Maven__org_codehaus_plexus_plexus_utils_1_5_6.xml │ ├── Maven__org_jfree_jfreesvg_3_3.xml │ ├── Maven__org_renjin_compiler_0_9_2646.xml │ ├── Maven__org_renjin_datasets_0_9_2646.xml │ ├── Maven__org_renjin_gcc_runtime_0_9_2646.xml │ ├── Maven__org_renjin_grDevices_0_9_2646.xml │ ├── Maven__org_renjin_graphics_0_9_2646.xml │ ├── Maven__org_renjin_methods_0_9_2646.xml │ ├── Maven__org_renjin_renjin_appl_0_9_2646.xml │ ├── Maven__org_renjin_renjin_asm_5_0_4b.xml │ ├── Maven__org_renjin_renjin_blas_0_9_2646.xml │ ├── Maven__org_renjin_renjin_core_0_9_2646.xml │ ├── Maven__org_renjin_renjin_gnur_runtime_0_9_2646.xml │ ├── Maven__org_renjin_renjin_guava_17_0b.xml │ ├── Maven__org_renjin_renjin_lapack_0_9_2646.xml │ ├── Maven__org_renjin_renjin_math_common_0_9_2646.xml │ ├── Maven__org_renjin_renjin_nmath_0_9_2646.xml │ ├── Maven__org_renjin_renjin_script_engine_0_9_2646.xml │ ├── Maven__org_renjin_stats_0_9_2646.xml │ ├── Maven__org_renjin_tools_0_9_2646.xml │ ├── Maven__org_renjin_utils_0_9_2646.xml │ ├── Maven__org_scilab_forge_jlatexmath_1_0_2.xml │ ├── Maven__org_tukaani_xz_1_0.xml │ ├── Maven__regexp_regexp_1_3.xml │ ├── Maven__stax_stax_api_1_0_1.xml │ └── Maven__xml_apis_xml_apis_1_0_b2.xml ├── misc.xml ├── modules.xml ├── vcs.xml └── workspace.xml ├── Help ├── Data.Add Numerical Variables.yaml ├── Data.CrearMenuPersonal.yaml ├── Data.Create New Table.yaml ├── Data.Delete Variables.yaml ├── Data.Filters.Advanced Filter.yaml ├── Data.Filters.Categorical Filter.yaml ├── Data.Manipulte.Calculate new Variable.yaml ├── Data.Manipulte.Categorical to Numeric.yaml ├── Data.Manipulte.Change Categorical Label.yaml ├── Data.Manipulte.Discretize-Segment variable.yaml ├── Data.Manipulte.Numeric to Categorical.yaml ├── Data.Manipulte.Sort Data.yaml ├── Data.Operations.Centering.yaml ├── Data.Operations.Perturbation.yaml ├── Data.Operations.Power Transformation.yaml ├── Data.Operations.Subcomposition-Closure.yaml ├── Data.Transformations.ALR.yaml ├── Data.Transformations.CLR.yaml ├── Data.Transformations.OLR-Raw.yaml ├── Data.Transformations.Raw-OLR.yaml ├── Graphs. Ternary-Quaternary Principal Components.yaml ├── Graphs.Balance Dendrogram.yaml ├── Graphs.Biplot.yaml ├── Graphs.Center Confidence Region.yaml ├── Graphs.OLR-CLR Plot.yaml ├── Graphs.Predictive Region.yaml ├── Graphs.Ternary-Quaternary Plot-Empty.yaml ├── Graphs.Ternary-Quaternary Plot.yaml ├── Irregular data.Set Detection Limit.yaml ├── Personal.ExportarMenuPersonal.yaml ├── Personal.ImportarMenuPersonal.yaml ├── Statistics.Additive Logistic Normality Tests.yaml ├── Statistics.Classical Statistics Summary.yaml ├── Statistics.Compositional Statistics Summary.yaml ├── cdp_bayesian_multiplicative_repl.yaml ├── cdp_boxplot.yaml ├── cdp_discriminant_analysis.yaml ├── cdp_geometric_mean_barplot.yaml ├── cdp_kmeans.yaml ├── cdp_lrnormal_missing.yaml ├── cdp_lrnormal_zero_repl.yaml ├── cdp_lrnormal_zero_repl_missing.yaml ├── cdp_manova.yaml ├── cdp_nonparametric_zero_repl.yaml ├── cdp_outliers.yaml ├── cdp_principal_balances.yaml ├── cdp_regression_coda_explanatory.yaml ├── cdp_regression_coda_response.yaml ├── cdp_scatterplot.yaml ├── cdp_univariate_normality_test.yaml └── cdp_zpatterns.yaml ├── README.md ├── Rlibraries └── .gitignore ├── Rscripts ├── .cdp_helper_functions.R ├── cdp_bayesian_multiplicative_repl.R ├── cdp_boxplot.R ├── cdp_boxplot_ggplot2.R ├── cdp_discriminant_analysis.R ├── cdp_geometric_mean_barplot.R ├── cdp_kmeans.R ├── cdp_lrnormal_missing.R ├── cdp_lrnormal_zero_repl.R ├── cdp_lrnormal_zero_repl_missing.R ├── cdp_manova.R ├── cdp_mosaic_plot.R ├── cdp_nonparametric_zero_repl.R ├── cdp_outliers.R ├── cdp_principal_balances.R ├── cdp_regression_coda_explanatory.R ├── cdp_regression_coda_response.R ├── cdp_regression_real.R ├── cdp_scatterplot.R ├── cdp_univariate_normality_test.R └── cdp_zpatterns.R ├── codapack_installer.iss ├── codapack_launch4j.xml ├── codapack_structure.json ├── codapack_structure.yaml ├── copy-macos ├── copy-macos-aarch64 ├── copy-macos-x64 ├── copy-windows ├── env_variables ├── install_packages.R ├── license.txt ├── menus_personalitzables ├── AtypicallIndex.txt ├── BayesianMultiplicativeReplacement.txt ├── DiscriminantAnalysis.txt ├── GeometricMeanBarplot.txt ├── LogratioEMMissingReplacement.txt ├── LogratioEMZeroMissingReplacement.txt ├── LogratioEMZeroReplacement.txt ├── Previsualitza.txt ├── RegressionXCompositionYReal.txt ├── RegressionXRealYComposition.txt ├── Scatterplot.txt ├── ZPatternsPlot.txt ├── boxPlot.txt ├── kMeans.txt └── manova.txt ├── pom.xml ├── run-R ├── run-codapack ├── run-codapack-macos ├── run-codapack.bat ├── set_rhome ├── src └── main │ ├── java │ ├── META-INF │ │ └── MANIFEST.MF │ └── coda │ │ ├── BasicStats.java │ │ ├── CoDaStats.java │ │ ├── DataFrame.java │ │ ├── Element.java │ │ ├── NonAvailable.java │ │ ├── Numeric.java │ │ ├── Text.java │ │ ├── Utils.java │ │ ├── Variable.java │ │ ├── Zero.java │ │ ├── ext │ │ ├── eps │ │ │ ├── ColorMode.java │ │ │ ├── Drawable.java │ │ │ ├── EpsDocument.java │ │ │ ├── EpsGraphics.java │ │ │ └── EpsTools.java │ │ ├── jama │ │ │ ├── CholeskyDecomposition.java │ │ │ ├── EigenvalueDecomposition.java │ │ │ ├── LUDecomposition.java │ │ │ ├── Maths.java │ │ │ ├── Matrix.java │ │ │ ├── QRDecomposition.java │ │ │ └── SingularValueDecomposition.java │ │ ├── json │ │ │ ├── JSONArray.java │ │ │ ├── JSONException.java │ │ │ ├── JSONObject.java │ │ │ ├── JSONString.java │ │ │ └── JSONTokener.java │ │ └── triangle │ │ │ ├── CorneredTriangle.java │ │ │ ├── RegularPolygon.java │ │ │ ├── SimpleTriangle.java │ │ │ ├── StarPolygon.java │ │ │ ├── Triangle2D.java │ │ │ └── Vertex2D.java │ │ ├── gui │ │ ├── CoDaPackAbout.java │ │ ├── CoDaPackConf.java │ │ ├── CoDaPackMain.java │ │ ├── CoDaPackMenu.java │ │ ├── CoDaPackUpdater.java │ │ ├── DataList.java │ │ ├── OutputPanel.java │ │ ├── menu │ │ │ ├── ALRPlotMenu.java │ │ │ ├── AbstractCrearMenu.java │ │ │ ├── AbstractMenuDialog.java │ │ │ ├── AbstractMenuDialogWithILR.java │ │ │ ├── AbstractMenuGeneral.java │ │ │ ├── AddNumericVariablesMenu.java │ │ │ ├── AddToPersonalMenu.java │ │ │ ├── AdvancedFilterMenu.java │ │ │ ├── AmalgamationDataMenu.java │ │ │ ├── AtypicalityIndexMenu.java │ │ │ ├── BalanceDendrogramMenu.java │ │ │ ├── CLRBiplotMenu.java │ │ │ ├── CLRPlotMenu.java │ │ │ ├── CalculateNewVarMenu.java │ │ │ ├── Categoric2NumericMenu.java │ │ │ ├── CenterConfidenceRegionPlotMenu.java │ │ │ ├── CenterDataMenu.java │ │ │ ├── ChangeGroupNameMenu.java │ │ │ ├── ClasStatsSummaryMenu.java │ │ │ ├── ClosureDataMenu.java │ │ │ ├── CoDaPackDialog.java │ │ │ ├── CompStatsSummaryMenu.java │ │ │ ├── ConfigurationMenu.java │ │ │ ├── CrearMenuPersonal.java │ │ │ ├── CreateNewTableMenu.java │ │ │ ├── DeleteVariablesMenu.java │ │ │ ├── DiscretizeMenu.java │ │ │ ├── DiscriminantAnalysisMenu.java │ │ │ ├── ExportPersonalMenu.java │ │ │ ├── ExportRDataMenu.java │ │ │ ├── FilterMenu.java │ │ │ ├── HelpMenu.java │ │ │ ├── ILRCLRBiplotMenu.java │ │ │ ├── ILRMenu.java │ │ │ ├── ILRPlotMenu.java │ │ │ ├── ImportCSVMenu.java │ │ │ ├── ImportRDAMenu.java │ │ │ ├── ImportXLSMenu.java │ │ │ ├── KMeansOldMenu.java │ │ │ ├── LogRatioNormalityTestMenu.java │ │ │ ├── ManovaMenu.java │ │ │ ├── Numeric2CategoricMenu.java │ │ │ ├── PerturbateDataMenu.java │ │ │ ├── PowerDataMenu.java │ │ │ ├── PredictiveRegionPlotMenu.java │ │ │ ├── RBasedGenericMenu_jri.java │ │ │ ├── ScatterplotMenu.java │ │ │ ├── SelectVariableMenu.java │ │ │ ├── SetDetectionLimitMenu.java │ │ │ ├── SortDataMenu.java │ │ │ ├── T1.java │ │ │ ├── TernaryQuaternaryPCPlotMenu.java │ │ │ ├── TernaryQuaternaryPlotMenu.java │ │ │ ├── TransformationALRMenu.java │ │ │ ├── TransformationCLRMenu.java │ │ │ ├── TransformationILRRawMenu.java │ │ │ ├── TransformationRawILRMenu.java │ │ │ └── UnivariateNormalityTestMenu.java │ │ ├── output │ │ │ ├── OutputAtipicality.java │ │ │ ├── OutputCenter.java │ │ │ ├── OutputClasStatsSummary.java │ │ │ ├── OutputCompStatsSummary.java │ │ │ ├── OutputCumulativeProportion.java │ │ │ ├── OutputElement.java │ │ │ ├── OutputForR.java │ │ │ ├── OutputILRPartition.java │ │ │ ├── OutputNormalityTest.java │ │ │ ├── OutputPercentiles.java │ │ │ ├── OutputPlotEnd.java │ │ │ ├── OutputPlotHeader.java │ │ │ ├── OutputPlotStart.java │ │ │ ├── OutputSingleValue.java │ │ │ ├── OutputTableTwoEntries.java │ │ │ ├── OutputText.java │ │ │ ├── OutputVariationArray.java │ │ │ └── OutputVector.java │ │ ├── table │ │ │ ├── ExcelAdapter.java │ │ │ ├── RowNumberTable.java │ │ │ └── TablePanel.java │ │ └── utils │ │ │ ├── AddDataManually.java │ │ │ ├── BinaryPartitionRowHeaders.java │ │ │ ├── BinaryPartitionSelect.java │ │ │ ├── BinaryPartitionTable.java │ │ │ ├── BoxDataSelector.java │ │ │ ├── DataFrameSelector.java │ │ │ ├── DataSelector.java │ │ │ ├── DataSelector1to1.java │ │ │ ├── DataSelector1to2.java │ │ │ ├── DataSelector2NumCat.java │ │ │ ├── DataSelector2NumCatONum.java │ │ │ ├── DataSelector2NumOCatNumOCat.java │ │ │ ├── DataSelectorGeneral.java │ │ │ └── FileNameExtensionFilter.java │ │ ├── io │ │ ├── CoDaPackImporter.java │ │ ├── ExportData.java │ │ ├── ExportRDA.java │ │ ├── ImportData.java │ │ ├── ImportRDA.java │ │ ├── ImportRDA_renjin.java │ │ ├── Importer.java │ │ └── WorkspaceIO.java │ │ ├── plot │ │ ├── AbstractCoDaDisplay.java │ │ ├── Biplot2dDisplay.java │ │ ├── Biplot3dDisplay.java │ │ ├── CoDa2dDisplay.java │ │ ├── CoDa3dDisplay.java │ │ ├── CoDaDisplayConfiguration.java │ │ ├── DendrogramDisplay.java │ │ ├── PlotUtils.java │ │ ├── PrincipalComponent2dDisplay.java │ │ ├── PrincipalComponent3dDisplay.java │ │ ├── RealPlot2dDisplay.java │ │ ├── RealPlot3dDisplay.java │ │ ├── TernaryPlot2dDisplay.java │ │ ├── TernaryPlot3dDisplay.java │ │ ├── TernaryPlotUtilitySelector.java │ │ └── window │ │ │ ├── Biplot2dWindow.java │ │ │ ├── Biplot3dWindow.java │ │ │ ├── CoDaPlot2dWindow.java │ │ │ ├── CoDaPlot3dWindow.java │ │ │ ├── CoDaPlotWindow.java │ │ │ ├── DendrogramWindow.java │ │ │ ├── PlotConfigurationMenu.java │ │ │ ├── RealPlot2dWindow.java │ │ │ ├── RealPlot3dWindow.java │ │ │ ├── TernaryPlot2dWindow.java │ │ │ └── TernaryPlot3dWindow.java │ │ ├── plot2 │ │ ├── ColorPanel.java │ │ ├── PlotUtils.java │ │ ├── PrincipalComponent2dBuilder.java │ │ ├── ShapePanel.java │ │ ├── TernaryPlot2dBuilder.java │ │ ├── TernaryPlot2dDisplay.java │ │ ├── TernaryPlot3dBuilder.java │ │ ├── TernaryPlot3dDisplay.java │ │ ├── datafig │ │ │ ├── Circle.java │ │ │ ├── CoDaShape.java │ │ │ ├── FilledCircle.java │ │ │ ├── FilledSquare.java │ │ │ ├── FilledStar.java │ │ │ ├── FilledTriangleDown.java │ │ │ └── FilledTriangleUp.java │ │ ├── objects │ │ │ ├── Ternary2dCurveObject.java │ │ │ ├── Ternary2dDataObject.java │ │ │ ├── Ternary2dGridObject.java │ │ │ ├── Ternary2dObject.java │ │ │ ├── Ternary3dDataObject.java │ │ │ ├── Ternary3dObject.java │ │ │ ├── Ternary3dSurfaceObject.java │ │ │ └── TernaryObject.java │ │ └── window │ │ │ ├── TernaryPlot2dDialogCoDaLines.java │ │ │ ├── TernaryPlot2dDialogCurve.java │ │ │ ├── TernaryPlot2dDialogDataSet.java │ │ │ └── TernaryPlot2dWindow.java │ │ 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