.AdjacencyMatrix        Create S4 class AdjacencyMatrix
.assays_have_identical_colnames_rownames
                        Check if all the assays in the
                        'AdjacencyMatrix' object have identical
                        colnames and rownames
.assays_have_identical_dimnames
                        Check if the assays in the 'AdjacencyMatrix'
                        object have identical dimnames
AdjacencyMatrix         Wrapper to create an instance of S4 class
                        AdjacencyMatrix
AdjacencyMatrix-class   Methods for 'AdjacencyMatrix' objects
AllGenerics             Placeholder for generics functions
                        documentation
MetNet-package          Inferring metabolic networks from untargeted
                        high-resolution mass spectrometry data
addSpectralSimilarity   Adding a spectral similarity matrix to the
                        "structural" 'AdjacencyMatrix'
addToList               Add adjacency matrix to list
aracne                  Create an adjacency matrix based on algorithm
                        for the reconstruction of accurate cellular
                        networks
bayes                   Create an adjacency matrix based on score-based
                        structure learning algorithm
clr                     Create an adjacency matrix based on context
                        likelihood or relatedness network
combine                 Combine structural and statistical
                        'AdjacencyMatrix' objects
correlation             Create an adjacency matrix based on correlation
getLinks                Write an adjacency matrix to a 'data.frame'
lasso                   Create an adjacency matrix based on LASSO
mat_test                Example data for 'MetNet': unit tests
mat_test_z              Example data for 'MetNet': unit tests
ms2_test                Spectra data to test addSpectralSimilarity
mz_summary              Create a summary from adjacency list containing
                        mass differences
mz_vis                  Visualize mass difference distribution
partialCorrelation      Calculate the partial correlation and p-values
peaklist                Example data for 'MetNet': data input
randomForest            Create an adjacency matrix based on random
                        forest
rtCorrection            Correct connections in the structural adjacency
                        matrices by retention time
spectra_matrix          Spectra data to test addSpectralSimilarity
statistical             Create an 'AdjacencyMatrix' object containing
                        assays of adjacency matrices from statistical
                        methods
structural              Create adjacency matrix based on m/z (molecular
                        weight) difference
threshold               Threshold the statistical adjacency or spectral
                        similarity matrices
topKnet                 Return consensus ranks from a matrix containing
                        ranks
x_annotation            Example annotation for 'MetNet': data input
x_test                  Example data for 'MetNet': data input
