ALDEx2m-package         Analysis of differential abundance taking
                        sample variation into account
aldex                   Compute an 'aldex' Object
aldex.clr               Compute an 'aldex.clr' Object
aldex.clr-class         The aldex.clr class
aldex.corr              Calculate correlation with a continuous
                        variable
aldex.effect            calculate effect sizes and differences between
                        conditions
aldex.expectedDistance
                        Calculate the expected values of distances
                        between samples, given an 'aldex' Object
aldex.glm               Calculate glm test statistics using a
                        'model.matrix'
aldex.glm.effect        calculate effect sizes and differences between
                        all constrasts for the aldex.glm model matrix
aldex.kw                Calculate the Kruskal-Wallis test and glm
                        statistics
aldex.plot              Plot an 'aldex' Object
aldex.plotFeature       Show dispersion of the expected values returned
                        by 'aldex.effect'
aldex.set.mode          identify set of denominator features for
                        log-ratio calculation
aldex.ttest             Calculate Wilcoxon Rank Sum test and Welch's
                        t-test statistics
getDenom                getDenom
getDirichletInstances   getDirichletInstances
getDirichletReplicate   getDirichletReplicate
getDirichletSample      getDirichletSample
getFeatureNames         getFeatureNames
getFeatures             getFeatures
getMonteCarloInstances
                        getMonteCarloInstances
getMonteCarloReplicate
                        getMonteCarloReplicate
getMonteCarloSample     getMonteCarloSample
getReads                getReads
getSampleIDs            getSampleIDs
numConditions           numConditions
numFeatures             numFeatures
numMCInstances          numMCInstances
selex                   Selection-based differential sequence variant
                        abundance dataset
synth2                  Synthetic asymmetric dataset
