Function reference • pareg

All functions
`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`.
`cluster_apply()`	Parallelize function calls on LSF cluster.
`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()` `gaussian()` `bernoulli()` `beta()` `beta_phi_lm()` `beta_phi_var()`	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).

Reference