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codapack_structure.json
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{"CoDaPack Menu":[{"Data":[{"Transformation":[{"ALR":{"id":"TransformationALR"}},{"CLR":{"id":"TransformationCLR"}},{"Raw-ILR":{"id":"TransformationRawILR"}},{"ILR-Raw":{"id":"TransformationILRRaw"}}]},{"Operations":[{"Centering":{"id":"CenterData"}},{"Subcomposition/Closure":{"id":"ClosureData"}},{"Perturbation":{"id":"PerturbateData"}},{"Power Transformation":{"id":"PowerData"}}]},{"Manipulate":[{"Discretize/Segment Variable":{"id":"Discretize"}},{"Calculate New Variable":{"id":"CalculateNewVar"}},{"Sort Data":{"id":"SortData"}},{"Numeric to Categoric":{"id":"Numeric2Categoric"}},{"Categoric to Numeric":{"id":"Categoric2Numeric"}},{"Change Category Labels":{"id":"ChangeGroupName"}}]},{"Filters":[{"Categorical Filter":{"id":"Filter"}},{"Advanced Filter":{"id":"AdvancedFilter"}}]},{"Create New Table":{"id":"CreateNewTable"}},{"Add Numeric Variables":{"id":"AddNumericVariables"}},{"Delete Variables":{"id":"DeleteVariables"}}]},{"Irregular Data":[{"Zero Patterns":{"id":"ZeroPatterns","code":"r","script":"cdp_zpatterns.R","controls":[{"boolean":"Show means"},{"boolean":"Show percentages"},{"boolean":{"label":"Add Pattern","value":true}},{"boolean":{"label":"Plot Pattern","value":true}},{"select":{"name":"Label","values":["0","NA"]}}]}},{"Set Detection Limit":{"id":"SetDetectionLimit"}},"Separator",{"Multiplicative Zero Replacement":{"id":"NonParametricZeroReplacement","code":"r","script":"cdp_nonparametric_zero_repl.R","controls":[{"numeric":{"name":"DL proportion","value":0.65}}]}},{"Bayesian Multiplicative Zero Replacement":{"id":"BayesianMultiplicativeZeroReplacement","code":"r","script":"cdp_bayesian_multiplicative_repl.R","controls":[{"select":{"name":"Method","values":["GBM","SQ","BL","CZM"]}},{"select":{"name":"Output","values":["p-counts","prop"]}}]}},{"Log-Ratio EM Zero Replacement":{"id":"LogRatioEMZeroReplacement","code":"r","script":"cdp_lrnormal_zero_repl.R","controls":[{"select":{"name":"Initial Cov","values":["multRepl","complete.obs"]}},{"numeric":{"name":"DL proportion","value":0.65}},{"boolean":"Robust"}]}},{"Log-Ratio EM Missing Imputation":{"id":"LogRatioEMMissingReplacement","code":"r","script":"cdp_lrnormal_missing.R","controls":[{"boolean":"Robust"}]}},{"Log-Ratio EM Zero Repl. & Missing Imp.":{"id":"LogRatioEMZeroMissingReplacement","code":"r","script":"cdp_lrnormal_zero_repl_missing.R","controls":[{"select":{"name":"Initial Cov","values":["multRepl","complete.obs"]}},{"numeric":{"name":"DL proportion","value":0.65}},{"boolean":"Robust"}]}},"Separator",{"Atypicality Index":{"id":"Outliers","code":"r","script":"cdp_outliers.R","controls":[{"numeric":{"name":"Confidence level","value":0.95}}]}}]},{"Statistics":[{"Compositional Statistics Summary":{"id":"CompStatsSummary"}},{"Classical Statistics Summary":{"id":"ClasStatsSummary"}},"Separator",{"Multivariate Analysis":[{"Regression":[{"X real, Y composition":{"id":"RegressionCoDaResponse","code":"r","script":"cdp_regression_coda_response.R","options":"2selectors","textA":"Explanatory variables","textB":"Response composition","controls":[{"basis":{"name":"Response partition","selector":"Y"}},{"boolean":"Residuals"},{"boolean":"Fitted values"}]}},{"X composition, Y real":{"id":"RegressionCoDaExplanaotory","code":"r","script":"cdp_regression_coda_explanatory.R","options":"2selectors","textA":"Explanatory composition","textB":"Response variable","controls":[{"basis":{"name":"Explanatory partition","selector":"X"}},{"boolean":"Residuals"},{"boolean":"Fitted values"}]}},{"X real, Y real":{"id":"RegressionReal","code":"r","script":"cdp_regression_real.R","options":"2selectors","textA":"Explanatory variables","textB":"Response variable","controls":[{"boolean":"Residuals"},{"boolean":"Fitted values"},{"data":"Predict new data"}]}}]},{"Cluster":[{"K-means":{"id":"KMeans","code":"r","script":"cdp_kmeans.R","controls":[{"label":"Number of clusters"},{"numeric":{"name":"Mininum","value":2}},{"numeric":{"name":"Maximum","value":10}},{"select":{"name":"Optimality","values":["Calinski index","Average Silhouette"]}},{"string":{"name":"Cluster name","value":"Cluster"}}]}}]},{"Manova":{"id":"Manova","code":"r","script":"cdp_manova.R","options":"groups","controls":[{"boolean":"Residuals"},{"boolean":"Test pairs"},{"select":{"name":"Test","values":["Pillai","Wilks","Hotelling-Lawley","Roy","Spherical"]}},{"boolean":"Sum-Squares"}]}},{"Discriminant Analysis":{"id":"DiscriminantAnalysis","code":"r","script":"cdp_discriminant_analysis.R","options":"groups","controls":[{"boolean":"Uniform prior"},{"boolean":"Discriminant score"},{"boolean":"Posterior probability"},{"boolean":"Maximum posterior classification"},{"data":"Predict new data"}]}}]},{"Log-Ratio Normality Test":{"id":"LogRatioNormalityTest"}},{"Univariate Normality Test":{"id":"UnivariateNormalityTest","code":"r","script":"cdp_univariate_normality_test.R","controls":[{"select":{"name":"Method","values":["Shapiro-Wilk","Kolmogorov-Smirnov"]}}]}}]},{"Graphs":[{"Ternary/Quaternary Plot":{"id":"TernaryQuaternaryPlot"}},{"Ternary/Quaternary PC Plot":{"id":"TernaryQuaternaryPCPlot"}},{"Ternary Predictive Region":{"id":"PredictiveRegionPlot"}},{"Ternary Center Confidence Region":{"id":"CenterConfidenceRegionPlot"}},{"Ternary Plot Builder":{"id":"TernaryQuaternaryPlotEmpty"}},"Separator",{"Geometric Mean Barplot":{"id":"GeometricMeanBarplot","code":"r","script":"cdp_geometric_mean_barplot.R","options":"groups","controls":[{"select":{"name":"Arranged by","values":["parts","groups"]}}]}},{"CLR-plot":{"id":"CLRPlot"}},{"CLR-biplot":{"id":"CLRBiplot"}},{"ILR/CLR-biplot":{"id":"ILRCLRBiplot"}},{"Balance Dendrogram":{"id":"BalanceDendrogram"}},"Separator",{"Boxplot":{"id":"Boxplot","code":"r","script":"cdp_boxplot.R","options":"groups","controls":[{"boolean":"Add geometric mean"},{"boolean":"Add arithmetic mean"}]}},{"Scatterplot":{"id":"ScatterPlot","code":"r","script":"cdp_scatterplot.R","options":"groups","controls":[{"boolean":"Set same scale"}]}},{"Mosaic plot":{"id":"MosaicPlot","code":"r","script":"cdp_mosaic_plot.R","options":"only_categoric","controls":[]}}]}]}