as.data.frame.pareg     as.data.frame for an object of class 'pareg'.
as_dense_sim            Convert matrices.
as_enrichplot_object    Convert object of class 'pareg' to class
                        'enrichResult'.
compute_term_similarities
                        Term similarity computation.
create_model_df         Create design matrix.
cv_edgenet              Find the optimal shrinkage parameters for
                        edgenet
edgenet                 Fit a graph-regularized linear regression model
                        using edge-based regularization. Adapted from
                        https://github.com/dirmeier/netReg.
family                  Family objects for models
generate_similarity_matrix
                        Similarity matrix generation.
jaccard                 Jaccard similarity.
overlap_coefficient     Overlap coefficient.
pareg                   Pathway enrichment using a regularized
                        regression approach.
pathway_similarities    Collection of pathway similarity matrices.
plot.pareg              Plot pareg object.
plot_pareg_with_args    Plot result of enrichment computation.
similarity_sample       Sample elements based on similarity structure.
transform_y             Transform vector from [0, 1] to (0, 1).
