Man pages for cbg-ethz/pareg
Pathway enrichment using a regularized regression approach
| 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. |
| cvedgenet-methods | Find the optimal shrinkage parameters for edgenet |
| edgenet-methods | Fit a graph-regularized linear regression model using... |
| family-methods | 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. |
| pareg_env | Conda environment definition. |
| 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). |
