API for MOFA2
Multi-Omics Factor Analysis v2
| Global functions | |
|---|---|
| %>% | Man page |
| .add_legend | Source code |
| .check_and_get_factors | Source code |
| .check_and_get_features_from_view | Source code |
| .check_and_get_groups | Source code |
| .check_and_get_samples | Source code |
| .check_and_get_views | Source code |
| .compute_feature_statistics | Source code |
| .cpaste | Source code |
| .createVarGroupList | Source code |
| .create_matrix_placeholder | Source code |
| .detect_outliers | Source code |
| .df_to_matrix | Source code |
| .flip_factor | Source code |
| .get_nodes_types | Source code |
| .get_top_features_by_loading | Source code |
| .infer_likelihoods | Source code |
| .insert_inside | Source code |
| .name_views_and_groups | Source code |
| .pad_left | Source code |
| .pad_left_with | Source code |
| .pcgse | Source code |
| .pcgse_ttest | Source code |
| .pcgse_wmw | Source code |
| .plot_multiple_factors | Source code |
| .quality_control | Source code |
| .rep_string | Source code |
| .run_mofa_reticulate | Source code |
| .select_axis.text.size | Source code |
| .select_pearson_text_size | Source code |
| .select_stroke | Source code |
| .set_colorby | Source code |
| .set_colorby_features | Source code |
| .set_data_names | Source code |
| .set_expectations_names | Source code |
| .set_groupby | Source code |
| .set_imputed_data_names | Source code |
| .set_shapeby | Source code |
| .set_shapeby_features | Source code |
| .split_data_into_groups | Source code |
| .split_sce_into_groups | Source code |
| .split_seurat_into_groups | Source code |
| .subset_augment | Source code |
| MOFA | Man page |
| MOFA-class | Man page |
| calculate_variance_explained | Man page Source code |
| cluster_samples | Man page Source code |
| compare_elbo | Man page Source code |
| compare_factors | Man page Source code |
| correlate_factors_with_covariates | Man page Source code |
| create_mofa | Man page Source code |
| create_mofa_from_MultiAssayExperiment | Man page Source code |
| create_mofa_from_Seurat | Man page Source code |
| create_mofa_from_SingleCellExperiment | Man page Source code |
| create_mofa_from_df | Man page Source code |
| create_mofa_from_matrix | Man page Source code |
| factors_names | Man page |
| factors_names,MOFA-method | Man page |
| factors_names<- | Man page |
| factors_names<-,MOFA,vector-method | Man page |
| features_metadata | Man page |
| features_metadata,MOFA-method | Man page |
| features_metadata<- | Man page |
| features_metadata<-,MOFA,data.frame-method | Man page |
| features_names | Man page |
| features_names,MOFA-method | Man page |
| features_names<- | Man page |
| features_names<-,MOFA,list-method | Man page |
| get_data | Man page Source code |
| get_default_data_options | Man page Source code |
| get_default_model_options | Man page Source code |
| get_default_stochastic_options | Man page Source code |
| get_default_training_options | Man page Source code |
| get_dimensions | Man page Source code |
| get_elbo | Man page Source code |
| get_expectations | Man page Source code |
| get_factors | Man page Source code |
| get_imputed_data | Man page Source code |
| get_variance_explained | Man page Source code |
| get_weights | Man page Source code |
| groups_names | Man page |
| groups_names,MOFA-method | Man page |
| groups_names<- | Man page |
| groups_names<-,MOFA,character-method | Man page |
| impute | Man page Source code |
| load_model | Man page Source code |
| make_example_data | Man page Source code |
| plot_ascii_data | Man page Source code |
| plot_data_heatmap | Man page Source code |
| plot_data_overview | Man page Source code |
| plot_data_scatter | Man page Source code |
| plot_dimred | Man page Source code |
| plot_enrichment | Man page Source code |
| plot_enrichment_detailed | Man page Source code |
| plot_enrichment_heatmap | Man page Source code |
| plot_factor | Man page Source code |
| plot_factor_cor | Man page Source code |
| plot_factors | Man page Source code |
| plot_top_weights | Man page Source code |
| plot_variance_explained | Man page Source code |
| plot_variance_explained_per_feature | Man page Source code |
| plot_weights | Man page Source code |
| plot_weights_heatmap | Man page Source code |
| plot_weights_scatter | Man page |
| predict | Man page Source code |
| prepare_mofa | Man page Source code |
| run_enrichment | Man page Source code |
| run_mofa | Man page Source code |
| run_tsne | Man page Source code |
| run_umap | Man page Source code |
| samples_metadata | Man page |
| samples_metadata,MOFA-method | Man page |
| samples_metadata<- | Man page |
| samples_metadata<-,MOFA,data.frame-method | Man page |
| samples_names | Man page |
| samples_names,MOFA-method | Man page |
| samples_names<- | Man page |
| samples_names<-,MOFA,list-method | Man page |
| select_model | Man page Source code |
| subset_factors | Man page Source code |
| subset_features | Man page Source code |
| subset_groups | Man page Source code |
| subset_samples | Man page Source code |
| subset_views | Man page Source code |
| summarise_factors | Man page Source code |
| views_names | Man page |
| views_names,MOFA-method | Man page |
| views_names<- | Man page |
| views_names<-,MOFA,character-method | Man page |
