tanaylab/MCView
A Shiny App for Metacell Analysis

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Functions
337
Source code
91
Man pages
17
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tanaylab/MCView: A Shiny App for Metacell Analysis
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API

API for tanaylab/MCView
A Shiny App for Metacell Analysis

Global functions
MCView Man page
MCView-package Man page
add_alpha Source code
add_app_file Source code
add_gene_modules Source code
add_genes_to_gene_module Source code
add_markers_colorbars Source code
add_metacells_file Source code
add_tab Source code
add_to_config Source code
annotate_genes Source code
app_server Source code
app_sys Source code
app_ui Source code
arrange_2d_proj_tooltip Source code
atlas_gene_gene Source code
axis_selector Source code
axis_vars_ok Source code
calc_ct_ct_gene_df Source code
calc_diff_expr Source code
calc_gene_modules Source code
calc_gg_mc_top_cor Source code
calc_marker_genes Source code
calc_mc_egc_t Source code
calc_mc_mc_gene_df Source code
calc_obs_exp_mc_df Source code
calc_obs_exp_type_df Source code
calc_samp_samp_gene_df Source code
calc_top_cors Source code
cell_metadata_to_metacell Man page Source code
cell_metadata_to_metacell_from_h5ad Man page Source code
cell_metadata_to_metacell_from_metacell1 Man page Source code
cell_type_gene_boxplot Source code
cell_type_metadata_boxplot Source code
cell_type_metadata_confusion Source code
cell_type_selector Source code
choose_markers Source code
cli_abort_compute_for_mcview Source code
cli_alert_success_verbose Source code
cli_alert_verbose Source code
clipboard_changed_2d_reactive Source code
clipboard_changed_scatter_reactive Source code
clipboard_reactives Source code
cluster_egc Source code
col2hex Source code
col_1 Source code
col_10 Source code
col_12 Source code
col_2 Source code
col_3 Source code
col_4 Source code
col_6 Source code
col_8 Source code
color_cell_types Source code
colored_metacell_selector Source code
command_file_path Source code
compute_umap Source code
config_shiny_cache Source code
connect_gene_plots Source code
create_bundle Man page Source code
create_heatmap_help_modal Source code
create_project Man page Source code
create_project_config_file Source code
create_project_dirs Source code
dataset_ls Man page Source code
dataset_rm Man page Source code
default_scatters_log_labels Source code
delete_button_column Source code
diff_expr_auto_update_globals Source code
diff_expr_box Source code
diff_expr_outputs Source code
diff_expr_switch_metacells Source code
display Source code
download_data_modal_reactives Source code
download_modal_reactives Source code
download_project Source code
downsample_mat_rows Source code
drop_nulls Source code
dt_selector_column Source code
enurl Source code
filter_heatmap_by_metacell Source code
filter_markers_mat Source code
filter_mat_by_cell_types Source code
fitted_gene_per_cell_type_selector Source code
fitted_genes_per_cell_type_plot Source code
fitted_genes_per_cell_type_stat_box Source code
fitted_genes_per_cell_type_table Source code
gene_correction_factor_scatter_plot Source code
gene_correction_factor_stat_box Source code
gene_correction_factor_table Source code
gene_inner_fold_scatter_plot Source code
gene_inner_fold_stat_box Source code
gene_inner_fold_table Source code
gene_label Source code
gene_modules_selector Source code
gene_names Source code
gene_names_label Source code
generic_box Source code
generic_column Source code
get_cached_cor Source code
get_cell_type_colors Source code
get_cell_types_egc Source code
get_cell_types_mat Source code
get_gene_by_heatmap_coord Source code
get_gene_colors Source code
get_gene_egc Source code
get_gene_fp Source code
get_gene_module_egc Source code
get_markers_metadata Source code
get_mc_egc Source code
get_mc_fp Source code
get_mc_gene_modules_egc Source code
get_mc_gene_modules_fp Source code
get_md_attribute Source code
get_metacell_by_heatmap_coord Source code
get_metacells_egc Source code
get_metadata_colors Source code
get_module_genes Source code
get_plotly_subplot_title Source code
get_samples_egc Source code
get_samples_gene_egc Source code
get_samples_mat Source code
get_sig_edge Source code
get_top_cor_gene Source code
get_top_marks Source code
get_top_var_genes Source code
golem_add_external_resources Source code
group_selectors Source code
group_selectors_mod_query Source code
heatmap_box Source code
heatmap_matrix_reactives Source code
heatmap_reactives Source code
heatmap_sidebar Source code
import_atlas Source code
import_cell_metadata Man page Source code
import_dataset Man page Source code
import_dataset_metacell1 Man page Source code
includeRMarkdown Source code
init_config Source code
init_defs Source code
init_project_dir Source code
init_selected_genes Source code
init_tab_defs Source code
init_temp_scdb Source code
initial_proj_point_size Source code
initial_proj_stroke Source code
initial_scatters_point_size Source code
initial_scatters_stroke Source code
jq_hide Source code
layout_and_graph_to_mc2d Source code
list_to_li Source code
list_to_p Source code
load_all_mc_data_atlas Source code
load_default_2d_projection Source code
load_metadata Source code
load_outliers Source code
load_shiny_data Source code
mc2d_plot_gene_ggp Source code
mc2d_plot_metadata_ggp Source code
mc2d_plot_metadata_ggp_categorical Source code
mc2d_plot_metadata_ggp_numeric Source code
mc2d_to_df Source code
mc2d_to_graph_df Source code
mc_mc_gene_scatter_df_reactive Source code
mct_propagate_backward_from_t Source code
mct_propagate_flow_through_metacell Source code
mctnetwork_g_t_types Source code
mctnetwork_mc_rank_from_color_ord Source code
metacell_click_observer Source code
metacell_colors_reactive Source code
metacell_from_coords_proj Source code
metacell_names_reactive Source code
metacell_selector Source code
metacell_selectors Source code
metacell_selectors_mod_query Source code
metacells_to_types Source code
metadata_selector Source code
min_edge_length Source code
mod_about_server Source code
mod_about_sidebar_ui Source code
mod_about_ui Source code
mod_annotate_server Source code
mod_annotate_sidebar_ui Source code
mod_annotate_ui Source code
mod_atlas_server Source code
mod_atlas_sidebar_ui Source code
mod_atlas_ui Source code
mod_cell_type_server Source code
mod_cell_type_sidebar_ui Source code
mod_cell_type_ui Source code
mod_flow_server Source code
mod_flow_sidebar_ui Source code
mod_flow_ui Source code
mod_gene_mc_globals_observers Source code
mod_gene_mc_plotly_observers Source code
mod_gene_mc_server Source code
mod_gene_mc_sidebar_ui Source code
mod_gene_mc_ui Source code
mod_gene_module_controllers Source code
mod_gene_modules_server Source code
mod_gene_modules_sidebar_ui Source code
mod_gene_modules_ui Source code
mod_inner_fold_server Source code
mod_inner_fold_sidebar_ui Source code
mod_inner_fold_ui Source code
mod_manifold_server Source code
mod_manifold_sidebar_ui Source code
mod_manifold_ui Source code
mod_markers_server Source code
mod_markers_sidebar_ui Source code
mod_markers_ui Source code
mod_mc_mc_globals_observers Source code
mod_mc_mc_server Source code
mod_mc_mc_sidebar_ui Source code
mod_mc_mc_ui Source code
mod_outliers_server Source code
mod_outliers_sidebar_ui Source code
mod_outliers_ui Source code
mod_proj_fold_server Source code
mod_proj_fold_sidebar_ui Source code
mod_proj_fold_ui Source code
mod_projection_qc_server Source code
mod_projection_qc_sidebar_ui Source code
mod_projection_qc_ui Source code
mod_qc_server Source code
mod_qc_sidebar_ui Source code
mod_qc_ui Source code
mod_query_globals_observers Source code
mod_query_server Source code
mod_query_sidebar_ui Source code
mod_query_ui Source code
mod_samples_server Source code
mod_samples_sidebar_ui Source code
mod_samples_ui Source code
mod_stdev_fold_server Source code
mod_stdev_fold_sidebar_ui Source code
mod_stdev_fold_ui Source code
modify_gene_names Source code
named_to_li Source code
observe_mc_click_event Source code
observer_mc_select_event Source code
order_mc_by_most_var_genes Source code
order_tabs Source code
parse_cell_type_colors Source code
parse_delete_event Source code
parse_gene_modules_file Source code
parse_metacell_types Source code
parse_metadata Source code
parse_metadata_colors Source code
plot_color_bar Source code
plot_gene_time_over_mc Source code
plot_gene_trajectory Source code
plot_gg_over_mc Source code
plot_markers_mat Source code
plot_mc_mc_gene Source code
plot_mc_scatter Source code
plot_mc_time_dist Source code
plot_obs_proj_scatter Source code
plot_propagation_net_metacell Source code
plot_sample_scatter Source code
plot_sample_stacked_types Source code
plot_type_predictions_bar Source code
plot_vein Source code
plotly_click_observer Source code
plotly_text_plot Source code
print.gt_custom Man page Source code
project_about_file Source code
project_cache_dir Source code
project_config_file Source code
project_metacells_algorithm_file Source code
project_version_file Source code
projection_box Source code
projection_selectors Source code
qc_density Source code
qc_ecdf Source code
qc_stat_box Source code
qc_stat_plot Source code
qc_value_box Source code
read_metacell_graphs Source code
render_2d_plotly Source code
render_axis_select_ui Source code
render_mc_mc_gene_diff_table Source code
render_mc_mc_gene_plotly Source code
rep_br Source code
rm_plotly_grid Source code
run_app Man page Source code
sample_click_observer Source code
sanitize_for_WebGL Source code
sanitize_metacell_types Source code
sanitize_plotly_buttons Source code
save_function_call Source code
scatter_box Source code
scatter_box_outputs Source code
scatter_selectors Source code
select_metacell_plotly_event_projection Source code
select_top_fold_genes Source code
select_top_fold_genes_per_metacell Source code
selected_genes_event_observer Source code
serialize_shiny_data Source code
source_metacells_file_path Source code
tagRemoveAttributes Source code
top_correlated_selector Source code
top_correlated_selector_multiple_genes Source code
top_correlated_selectors Source code
undisplay Source code
update_2d_projection Man page Source code
update_cell_type_colors Man page Source code
update_gene_modules Man page Source code
update_metacell_types Man page Source code
update_metadata Man page Source code
update_metadata_colors Man page Source code
validate_proj_weights Source code
verify_config_file Source code
verify_gene_modules Source code
verify_version Source code
with_red_star Source code
zero_fold_gene_plot Source code
zero_fold_stat_box Source code
zero_fold_table Source code
tanaylab/MCView documentation built on June 1, 2025, 8:08 p.m.

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