API for keyes-timothy/tidytof
Analyze High-dimensional Cytometry Data Using Tidy Data Principles
| Global functions | |
|---|---|
| %>% | Man page |
| .data | Man page |
| := | Man page |
| DetermineNumberOfClusters | Source code |
| MetaClustering | Source code |
| SSE | Source code |
| all_of | Man page |
| any_of | Man page |
| as_SingleCellExperiment | Man page Source code |
| as_SingleCellExperiment.tof_tbl | Man page Source code |
| as_flowFrame | Man page Source code |
| as_flowFrame.tof_tbl | Man page Source code |
| as_flowSet | Man page Source code |
| as_flowSet.tof_tbl | Man page Source code |
| as_seurat | Man page Source code |
| as_seurat.tof_tbl | Man page Source code |
| as_tof_tbl | Man page Source code |
| as_tof_tbl.flowFrame | Source code |
| as_tof_tbl.flowSet | Man page Source code |
| consensus | Source code |
| contains | Man page |
| cosine_similarity | Man page Source code |
| ddpr_data | Man page |
| ddpr_metadata | Man page |
| dot | Man page Source code |
| ends_with | Man page |
| everything | Man page |
| findElbow | Source code |
| find_jaccard_coefficients | Source code |
| flowsom_consensus | Source code |
| get_extension | Man page Source code |
| group_by.tof_tbl | Source code |
| l2_normalize | Man page Source code |
| last_col | Man page |
| magnitude | Man page Source code |
| make_flowcore_annotated_data_frame | Man page Source code |
| matches | Man page |
| metaClustering_consensus | Source code |
| metal_masterlist | Man page |
| mutate.tof_tbl | Source code |
| nest.tof_tbl | Source code |
| new_tof_model | Man page Source code |
| new_tof_tibble | Man page Source code |
| num_range | Man page |
| phenograph_cluster | Source code |
| phenograph_data | Man page |
| pivot_longer.tof_tbl | Source code |
| pivot_wider.tof_tbl | Source code |
| print.tof_model | Source code |
| reexports | Man page |
| rev_asinh | Man page Source code |
| select_helpers | Man page |
| slice_sample.tof_tbl | Source code |
| starts_with | Man page |
| tidy_lmer_test_glmm | Source code |
| tidytof_example_data | Man page Source code |
| tof_all_data | Source code |
| tof_analyze_abundance | Man page Source code |
| tof_analyze_abundance_diffcyt | Man page Source code |
| tof_analyze_abundance_glmm | Man page Source code |
| tof_analyze_abundance_ttest | Man page Source code |
| tof_analyze_expression | Man page Source code |
| tof_analyze_expression_diffcyt | Man page Source code |
| tof_analyze_expression_lmm | Man page Source code |
| tof_analyze_expression_ttest | Man page Source code |
| tof_annotate_clusters | Man page Source code |
| tof_apply_classifier | Man page Source code |
| tof_assess_channels | Man page Source code |
| tof_assess_clusters_distance | Man page Source code |
| tof_assess_clusters_entropy | Man page Source code |
| tof_assess_clusters_knn | Man page Source code |
| tof_assess_flow_rate | Man page Source code |
| tof_assess_flow_rate_tibble | Man page Source code |
| tof_assess_model | Man page Source code |
| tof_assess_model_new_data | Man page Source code |
| tof_assess_model_tuning | Man page Source code |
| tof_batch_correct | Man page Source code |
| tof_batch_correct_quantile | Man page Source code |
| tof_batch_correct_quantile_tibble | Man page Source code |
| tof_batch_correct_rescale | Man page Source code |
| tof_build_classifier | Man page Source code |
| tof_calculate_flow_rate | Man page Source code |
| tof_check_model_args | Man page Source code |
| tof_classify_cells | Man page Source code |
| tof_clean_metric_names | Man page Source code |
| tof_cluster | Man page Source code |
| tof_cluster_ddpr | Man page Source code |
| tof_cluster_flowsom | Man page Source code |
| tof_cluster_grouped | Man page Source code |
| tof_cluster_kmeans | Man page Source code |
| tof_cluster_phenograph | Man page Source code |
| tof_cluster_tibble | Man page Source code |
| tof_compute_km_curve | Man page |
| tof_cosine_dist | Man page Source code |
| tof_create_grid | Man page Source code |
| tof_create_recipe | Man page Source code |
| tof_downsample | Man page Source code |
| tof_downsample_constant | Man page Source code |
| tof_downsample_density | Man page Source code |
| tof_downsample_prop | Man page Source code |
| tof_estimate_density | Man page |
| tof_extract_central_tendency | Man page Source code |
| tof_extract_emd | Man page Source code |
| tof_extract_features | Man page Source code |
| tof_extract_jsd | Man page Source code |
| tof_extract_proportion | Man page Source code |
| tof_extract_threshold | Man page Source code |
| tof_finalize_model | Source code |
| tof_find_best | Man page Source code |
| tof_find_cv_predictions | Man page Source code |
| tof_find_emd | Man page |
| tof_find_glmnet_family | Source code |
| tof_find_jsd | Man page |
| tof_find_knn | Man page |
| tof_find_log_rank_threshold | Man page Source code |
| tof_find_panel_info | Man page Source code |
| tof_fit_split | Man page Source code |
| tof_generate_palette | Man page Source code |
| tof_get_model_mixture | Man page Source code |
| tof_get_model_outcomes | Man page Source code |
| tof_get_model_penalty | Man page Source code |
| tof_get_model_training_data | Man page Source code |
| tof_get_model_type | Man page Source code |
| tof_get_model_x | Man page Source code |
| tof_get_model_y | Man page Source code |
| tof_get_panel | Man page Source code |
| tof_is_numeric | Man page |
| tof_join_metacluster | Source code |
| tof_knn_density | Man page |
| tof_log_rank_test | Man page Source code |
| tof_make_knn_graph | Man page |
| tof_make_roc_curve | Man page Source code |
| tof_metaClustering_hclust | Source code |
| tof_metaClustering_kmeans | Source code |
| tof_metaClustering_som | Source code |
| tof_metacluster | Man page Source code |
| tof_metacluster_consensus | Man page Source code |
| tof_metacluster_flowsom | Man page Source code |
| tof_metacluster_hierarchical | Man page Source code |
| tof_metacluster_kmeans | Man page Source code |
| tof_metacluster_phenograph | Man page Source code |
| tof_plot_cells_density | Man page Source code |
| tof_plot_cells_embedding | Man page Source code |
| tof_plot_cells_layout | Man page Source code |
| tof_plot_cells_scatter | Man page Source code |
| tof_plot_clusters_heatmap | Man page Source code |
| tof_plot_clusters_mst | Man page Source code |
| tof_plot_clusters_volcano | Man page Source code |
| tof_plot_heatmap | Man page |
| tof_plot_model | Man page Source code |
| tof_plot_model_linear | Man page Source code |
| tof_plot_model_logistic | Man page Source code |
| tof_plot_model_multinomial | Man page Source code |
| tof_plot_model_survival | Man page Source code |
| tof_plot_sample_features | Man page Source code |
| tof_plot_sample_heatmap | Man page Source code |
| tof_postprocess | Man page Source code |
| tof_predict | Man page Source code |
| tof_prep_recipe | Man page Source code |
| tof_preprocess | Man page Source code |
| tof_read_csv | Man page Source code |
| tof_read_data | Man page Source code |
| tof_read_fcs | Man page Source code |
| tof_read_file | Man page Source code |
| tof_reduce_dimensions | Man page Source code |
| tof_reduce_pca | Man page Source code |
| tof_reduce_tsne | Man page Source code |
| tof_reduce_umap | Man page Source code |
| tof_set_panel | Man page Source code |
| tof_setup_glmnet_xy | Source code |
| tof_shannon_entropy | Source code |
| tof_softmax | Source code |
| tof_spade_density | Man page |
| tof_spade_downsampling | Source code |
| tof_split_data | Man page Source code |
| tof_split_tidytof_reduced_dimensions | Man page Source code |
| tof_sum_rescale | Source code |
| tof_summarize_clusters | Source code |
| tof_train_model | Man page Source code |
| tof_transform | Man page Source code |
| tof_tune_glmnet | Man page Source code |
| tof_upsample | Man page Source code |
| tof_upsample_distance | Man page Source code |
| tof_upsample_neighbor | Man page Source code |
| tof_write_csv | Man page Source code |
| tof_write_data | Man page Source code |
| tof_write_fcs | Man page Source code |
| ungroup.grouped_tof_tbl | Source code |
| unnest.tof_tbl | Source code |
| where | Man page |
