API for antonvsdata/notame
Workflow for non-targeted LC-MS metabolic profiling
| Global functions | |
|---|---|
| .onLoad | Man page Source code |
| MetaboSet | Man page |
| MetaboSet-class | Man page |
| `%||%` | Source code |
| add_citation | Source code |
| adjust_p_values | Source code |
| align_batches | Man page Source code |
| all_unique | Source code |
| arrow_plot | Source code |
| assess_quality | Man page Source code |
| assign_cluster_id | Man page Source code |
| best_class | Source code |
| best_classes | Source code |
| between_variance | Source code |
| check_column_match | Source code |
| check_exprs | Source code |
| check_feature_data | Source code |
| check_match | Source code |
| check_pheno_data | Source code |
| check_position | Source code |
| citations | Man page Source code |
| clean_stats_results | Man page Source code |
| cluster_features | Man page Source code |
| coalesce | Source code |
| cohens_d | Man page Source code |
| cohens_d_fun | Source code |
| comb | Source code |
| combined_data | Man page |
| combined_data,MetaboSet-method | Man page |
| compress_clusters | Man page Source code |
| construct_metabosets | Man page |
| correct_drift | Man page |
| create_feature_plot_list | Man page Source code |
| dc_cubic_spline | Man page Source code |
| density_plot | Source code |
| dobc | Man page Source code |
| drop_flagged | Man page Source code |
| drop_qcs | Man page Source code |
| erase_quality | Source code |
| example_set | Man page |
| exponential | Man page |
| fdata_batch_helper | Source code |
| fill_results | Source code |
| find_clusters | Man page |
| find_connections | Man page |
| finish_log | Man page Source code |
| finite_helpers | Man page |
| finite_mad | Man page Source code |
| finite_max | Man page Source code |
| finite_mean | Man page Source code |
| finite_median | Man page Source code |
| finite_min | Man page Source code |
| finite_quantile | Man page Source code |
| finite_sd | Man page Source code |
| fit_rf | Man page Source code |
| fix_MSMS | Man page Source code |
| flag,MetaboSet-method | Man page |
| flag_contaminants | Man page |
| flag_detection | Man page |
| flag_quality | Man page Source code |
| flag_report | Man page Source code |
| fold_change | Man page Source code |
| get_x | Man page Source code |
| group_col,MetaboSet-method | Man page |
| hclust_effects | Source code |
| hexbin_plot | Source code |
| hilic_neg_sample | Man page |
| hilic_pos_sample | Man page |
| importance_rf | Man page Source code |
| impute_rf | Man page Source code |
| impute_simple | Man page Source code |
| init_log | Man page Source code |
| inspect_dc | Man page Source code |
| install_dependencies | Man page Source code |
| install_helper | Source code |
| inverse_normalize | Man page Source code |
| join_fData | Man page |
| join_fData,MetaboSet,data.frame-method | Man page |
| join_pData | Man page |
| join_pData,MetaboSet,data.frame-method | Man page |
| log,MetaboSet-method | Man page |
| log10,MetaboSet-method | Man page |
| log2,MetaboSet-method | Man page |
| log_text | Man page Source code |
| log_text_if | Source code |
| looks_numeric | Source code |
| manhattan_plot | Man page |
| manhattan_plotter | Source code |
| mark_nas | Man page Source code |
| mark_qcs | Man page Source code |
| merge_batch_helper | Source code |
| merge_batches | Man page Source code |
| merge_exprs | Man page Source code |
| merge_metabosets | Man page Source code |
| merge_mode_helper | Source code |
| merged_sample | Man page |
| mixomics_pls | Man page Source code |
| mixomics_pls_optimize | Man page Source code |
| mixomics_plsda | Man page Source code |
| mixomics_plsda_optimize | Man page Source code |
| mixomics_spls_optimize | Man page Source code |
| mixomics_splsda_optimize | Man page Source code |
| muvr_analysis | Man page Source code |
| mz_rt_plot | Man page |
| mz_rt_plotter | Source code |
| normalize_batches | Man page Source code |
| pca_bhattacharyya_dist | Man page Source code |
| pca_helper | Source code |
| perform_auc | Man page Source code |
| perform_correlation_tests | Man page Source code |
| perform_homoscedasticity_tests | Man page |
| perform_kruskal_wallis | Man page |
| perform_lm | Man page Source code |
| perform_lm_anova | Man page Source code |
| perform_lmer | Man page Source code |
| perform_logistic | Man page Source code |
| perform_mann_whitney | Man page |
| perform_oneway_anova | Man page |
| perform_paired_t_test | Man page |
| perform_pairwise_non_parametric | Man page |
| perform_pairwise_t_test | Man page |
| perform_permanova | Man page Source code |
| perform_repeatability | Man page Source code |
| perform_t_test | Man page |
| perform_test | Source code |
| perform_wilcoxon_signed_rank | Man page |
| plot_dendrogram | Man page Source code |
| plot_dist_density | Man page Source code |
| plot_effect_heatmap | Man page Source code |
| plot_injection_lm | Man page Source code |
| plot_p_histogram | Man page Source code |
| plot_pca | Man page Source code |
| plot_pca_arrows | Man page Source code |
| plot_pca_hexbin | Man page Source code |
| plot_pca_loadings | Man page Source code |
| plot_pls | Man page Source code |
| plot_plsda | Source code |
| plot_quality | Man page Source code |
| plot_sample_boxplots | Man page Source code |
| plot_sample_heatmap | Man page Source code |
| plot_sample_suprahex | Man page Source code |
| plot_tsne | Man page Source code |
| plot_tsne_arrows | Man page Source code |
| plot_tsne_hexbin | Man page Source code |
| pls | Man page |
| pls_da | Man page |
| pooled_variance | Source code |
| pqn_normalization | Man page Source code |
| prop_found | Man page Source code |
| prop_na | Man page Source code |
| pull_clusters | Man page |
| quality | Man page Source code |
| read_from_excel | Man page Source code |
| repeatability | Source code |
| rp_neg_sample | Man page |
| rp_pos_sample | Man page |
| ruvs_qc | Man page Source code |
| save_batch_plots | Man page Source code |
| save_beeswarm_plots | Man page Source code |
| save_dc_plots | Man page |
| save_feature_plots | Man page Source code |
| save_group_boxplots | Man page Source code |
| save_group_lineplots | Man page Source code |
| save_plot | Man page Source code |
| save_scatter_plots | Man page Source code |
| save_subject_line_plots | Man page Source code |
| scale,MetaboSet-method | Man page |
| scatter_plot | Source code |
| subject_col,MetaboSet-method | Man page |
| summary_statistics | Man page Source code |
| t_sne_helper | Source code |
| time_col,MetaboSet-method | Man page |
| to_list | Source code |
| to_lowertri | Source code |
| visualizations | Man page Source code |
| visualize_clusters | Man page |
| volcano_plot | Man page |
| volcano_plotter | Source code |
| write_to_excel | Man page |
