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  "Title": "Exposome exploration and outcome data analysis",
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  "Maintainer": "Xavier Escribà Montagut <xavier.escriba@isglobal.org>",
  "Description": "Package that allows to explore the exposome and to perform\nassociation analyses between exposures and health outcomes.",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-05-11 17:35:33 UTC",
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  "Author": "Carles Hernandez-Ferrer [aut, cre],\nJuan R. Gonzalez [aut],\nXavier Escribà-Montagut [aut]",
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        "dim,ExposomeSet-method",
        "expos,ExposomeSet-method",
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        "standardize,ExposomeSet-method",
        "Summary,ExposomeSet-method",
        "tableLOD,ExposomeSet-method",
        "tableMissings,ExposomeSet-method",
        "trans,ExposomeSet-method"
      ]
    },
    {
      "page": "exposureNames-methods",
      "title": "Getter to obtain the exposures's names of an ExposomeSet or ExposomePCA",
      "topics": [
        "exposureNames"
      ]
    },
    {
      "page": "extract-methods",
      "title": "Raw data from 'ExWAS', 'ExposomeClust' and 'ExposomeCorr'.",
      "topics": [
        "extract"
      ]
    },
    {
      "page": "exwas-methods",
      "title": "Testing the association between an exposure and a phenotype of an ExposomeSet",
      "topics": [
        "exwas"
      ]
    },
    {
      "page": "ExWAS-class",
      "title": "Class ExWAS",
      "topics": [
        "extract,ExWAS-method",
        "ExWAS",
        "ExWAS-class",
        "get_robust_sd,ExWAS-method",
        "names,ExWAS-method",
        "plot,ExWAS,ANY-method",
        "plotEffect,ExWAS-method",
        "plotExwas,ExWAS-method",
        "plotVolcano,ExWAS-method",
        "tef,ExWAS-method"
      ]
    },
    {
      "page": "familyNames-methods",
      "title": "Getter to obtain the exposures's names of an ExposomeSet.",
      "topics": [
        "familyNames"
      ]
    },
    {
      "page": "get_robust_sd-methods",
      "title": "Raw data from 'ExWAS'",
      "topics": [
        "extract",
        "get_robust_sd"
      ]
    },
    {
      "page": "highAndLow-methods",
      "title": "Function to convert continuous exposures to categorical exposures",
      "topics": [
        "highAndLow"
      ]
    },
    {
      "page": "ilod-methods",
      "title": "Function to impute under-LOD values from an ExposomeSet",
      "topics": [
        "ilod"
      ]
    },
    {
      "page": "imExposomeSet-class",
      "title": "Class imExposomeSet",
      "topics": [
        "dim,imExposomeSet-method",
        "expos,imExposomeSet-method",
        "exposureNames,imExposomeSet-method",
        "extract,imExposomeSet-method",
        "exwas,imExposomeSet-method",
        "familyNames,imExposomeSet-method",
        "imExposomeSet",
        "imExposomeSet-class",
        "imExposomeSet-methods",
        "phenotypeNames,imExposomeSet-method",
        "plot,imExposomeSet,ANY-method",
        "plotFamily,imExposomeSet-method",
        "sampleNames,imExposomeSet-method",
        "toES,imExposomeSet-method",
        "[",
        "[,imExposomeSet,ANY,ANY,ANY-method",
        "[[,imExposomeSet-method"
      ]
    },
    {
      "page": "imputation-methods",
      "title": "Function to impute missing values from an ExposomeSet",
      "topics": [
        "imputation"
      ]
    },
    {
      "page": "imputeLOD",
      "title": "Function to impute values under limit of detection",
      "topics": [
        "imputeLOD"
      ]
    },
    {
      "page": "invExWAS-methods",
      "title": "Testing the association between an exposure and a phenotype of an ExposomeSet (modelling the exposures as response)",
      "topics": [
        "invExWAS"
      ]
    },
    {
      "page": "loadExposome",
      "title": "Creation of an ExposomeSet from 'data.frames'",
      "topics": [
        "loadExposome"
      ]
    },
    {
      "page": "loadExposome_plain",
      "title": "Creation of an ExposomeSet from single 'data.frame'",
      "topics": [
        "loadExposome_plain"
      ]
    },
    {
      "page": "loadImputed",
      "title": "Creation of an imExposomeSet from 'data.frames'",
      "topics": [
        "loadImputed"
      ]
    },
    {
      "page": "me",
      "title": "'data.frame' for testing purpouses",
      "topics": [
        "me"
      ]
    },
    {
      "page": "mexwas-methods",
      "title": "Testing the association between an exposure and a phenotype of an ExposomeSet using a multivariate aproach.",
      "topics": [
        "mexwas"
      ]
    },
    {
      "page": "mExWAS-class",
      "title": "Class mExWAS",
      "topics": [
        "extract,mExWAS-method",
        "mExWAS",
        "mExWAS-class",
        "plot,mExWAS,ANY-method",
        "plotExwas,mExWAS-method"
      ]
    },
    {
      "page": "ndim-methods",
      "title": "Number of principal components in an ExposomePCA.",
      "topics": [
        "ndim"
      ]
    },
    {
      "page": "normalityTest-methods",
      "title": "It creates a 'data.frame' of boolean indicating if the exposures follows a normal distribution or not.",
      "topics": [
        "normalityTest"
      ]
    },
    {
      "page": "pca-methods",
      "title": "Creation of an ExposomePCA from an ExposomeSet.",
      "topics": [
        "pca"
      ]
    },
    {
      "page": "phenotypeNames-methods",
      "title": "Getter to obtain the phenotype's names of an ExposomeSet or ExposomePCA.",
      "topics": [
        "phenotypeNames"
      ]
    },
    {
      "page": "plot3PCA-methods",
      "title": "Ploting PCA in a 3D space",
      "topics": [
        "plot3PCA"
      ]
    },
    {
      "page": "plotClassification-methods",
      "title": "Draw the profile of the levels exposures after a classification with a clustering method",
      "topics": [
        "plotClassification"
      ]
    },
    {
      "page": "plotCorrelation-methods",
      "title": "It draws both circos or matrix plot for the correlation in ExposomeCorr",
      "topics": [
        "plotCorrelation"
      ]
    },
    {
      "page": "plotEffect-methods",
      "title": "Function to draw a plot of the pvalues stored in an 'ExWAS' object",
      "topics": [
        "plotEffect"
      ]
    },
    {
      "page": "plotEXP-methods",
      "title": "Plot correlation between exposures and PCA",
      "topics": [
        "plotEXP"
      ]
    },
    {
      "page": "plotExwas-methods",
      "title": "Function to draw a plot of the pvalues stored in an 'ExWAS' object",
      "topics": [
        "plotExwas"
      ]
    },
    {
      "page": "plotFamily-methods",
      "title": "It draws the profile of the exposome in an ExposomeSet",
      "topics": [
        "plotFamily"
      ]
    },
    {
      "page": "plotHistogram-methods",
      "title": "It draws a histogram for each exposure in an ExposomeSet",
      "topics": [
        "plotHistogram"
      ]
    },
    {
      "page": "plotLOD-methods",
      "title": "It draws a chart with the percentage of under-LOD values in an ExposomeSet",
      "topics": [
        "plotLOD"
      ]
    },
    {
      "page": "plotMissings-methods",
      "title": "It draws a chart with the percentage of missing in an ExposomeSet",
      "topics": [
        "plotMissings"
      ]
    },
    {
      "page": "plotPCA-methods",
      "title": "Ploting PCA",
      "topics": [
        "plotPCA"
      ]
    },
    {
      "page": "plotPHE-methods",
      "title": "Plot association score between phentoypes and PCA",
      "topics": [
        "plotPHE"
      ]
    },
    {
      "page": "plotVolcano-methods",
      "title": "Function to draw a plot of the pvalues stored in an 'ExWAS' object",
      "topics": [
        "plotVolcano"
      ]
    },
    {
      "page": "readExposome",
      "title": "Creation of an ExposomeSet from files",
      "topics": [
        "readExposome"
      ]
    },
    {
      "page": "rexposome",
      "title": "rexposome: Package for exposome exploration and outcome data analysis",
      "topics": [
        "rexposome"
      ]
    },
    {
      "page": "standardize-methods",
      "title": "#' Summary of an ExposomeSet. #' #' Given an ExposomeSet is shows a summary for its exposures or #' its phenotypes. #' #' @name Summary #' @rdname Summary-methods #' @aliases Summary #' @param object codeExposomeSet with 'set' will be summarized. #' @param set Set to be sumarized ('\"exposures\"' or '\"phenotypes\"'). #' @param select Subseting of exposures of phenotypes. #' @return A basic description of the exposures in the 'ExposomeSet' #' @examples #' data(\"exposome\") #' Summary(expo, set = \"exposures\") #' @export Summary setGeneric(\"Summary\", function(object, set=c(\"exposures\", \"phenotypes\"), select) standardGeneric(\"Summary\") ) Standardize of an ExposomeSet.",
      "topics": [
        "standardize"
      ]
    },
    {
      "page": "tableLOD-methods",
      "title": "It creates a vector with the amount of under-LOD exposures in an ExposomeSet",
      "topics": [
        "tableLOD"
      ]
    },
    {
      "page": "tableMissings-methods",
      "title": "It creates a vector with the amount of missing in an ExposomeSet",
      "topics": [
        "tableMissings"
      ]
    },
    {
      "page": "tef-methods",
      "title": "Function to get the Threshold for effective tests (TEF)",
      "topics": [
        "tef"
      ]
    },
    {
      "page": "toES",
      "title": "Method to convert an imExposomeSet to an ExposomeSet",
      "topics": [
        "toES"
      ]
    },
    {
      "page": "trans-methods",
      "title": "Function to apply a transformation to the exposures of an ExposomeSet",
      "topics": [
        "trans"
      ]
    },
    {
      "page": "volcano_plot",
      "title": "Function to draw a Volcano Plot",
      "topics": [
        "volcano_plot"
      ]
    }
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      "source": "mutiple_imputation_data_analysis.Rmd",
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      "title": "Dealing with Multiple Imputations",
      "author": "Carles Hernandez-Ferrer and Juan R. Gonzalez",
      "engine": "knitr::rmarkdown",
      "headings": [
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