| factorMap | Plot an MFA factor map for individuals or partial factor map based on padma analysis |
| imputed_genes | Accessors for a padmaResults object. |
| imputed_genes-method | Accessors for a padmaResults object. |
| LUAD_subset | Subset of batch-corrected multi-omic TCGA data in lung adenocarcinoma |
| MFA_results | Accessors for a padmaResults object. |
| MFA_results-method | Accessors for a padmaResults object. |
| mirtarbase | Curated miR-target interaction predictions from miRTarBase |
| msigdb | MSigDB canonical pathways and corresponding gene lists |
| ngenes | Accessors for a padmaResults object. |
| ngenes-method | Accessors for a padmaResults object. |
| omicsContrib | Plot the omics contribution per MFA axis and the overall weighted contribution |
| padma | Calculate individualized deviation scores from multi-omic data |
| padma-method | Calculate individualized deviation scores from multi-omic data |
| padma-methods | Calculate individualized deviation scores from multi-omic data |
| padmaResults | padmaResults object and constructor |
| padmaResults-class | padmaResults object and constructor |
| padmaRun | Calculate individualized deviation scores from multi-omic data |
| pathway_gene_deviation | Accessors for a padmaResults object. |
| pathway_gene_deviation-method | Accessors for a padmaResults object. |
| pathway_name | Accessors for a padmaResults object. |
| pathway_name-method | Accessors for a padmaResults object. |
| removed_genes | Accessors for a padmaResults object. |
| removed_genes-method | Accessors for a padmaResults object. |
| show | Accessors for a padmaResults object. |
| show-method | Accessors for a padmaResults object. |
| summary | Summarize results from padma |
| summary-method | Summarize results from padma |
| summary-methods | Summarize results from padma |