API for NathanSkene/EWCE
Expression Weighted Celltype Enrichment

Global functions
EWCE Man page
EWCE-package Man page
add_res_to_merging_list Man page Source code
assign_cores Man page Source code
bin_columns_into_quantiles Man page Source code
bin_specificity_into_quantiles Man page Source code
bootstrap_enrichment_test Man page Source code
bootstrap_plot Man page Source code
calc_quantiles Man page Source code
calculate_meanexp_for_level Man page Source code
calculate_specificity_for_level Man page Source code
cell_list_dist Man page Source code
check_annotLevels Man page Source code
check_args_for_bootstrap_plot_generation Man page Source code
check_bootstrap_args Man page Source code
check_controlled_args Man page Source code
check_ewce_expression_data_args Man page Source code
check_ewce_genelist_inputs Man page Source code
check_full_results Man page Source code
check_generate_controlled_bootstrap_geneset Man page Source code
check_group_name Man page Source code
check_nas Man page Source code
check_numeric Man page Source code
check_percent_hits Man page Source code
check_sce Man page Source code
check_species Man page Source code
controlled_geneset_enrichment Man page Source code
convert_new_ewce_to_old Man page Source code
convert_old_ewce_to_new Man page Source code
create_background_multilist Man page Source code
create_list_network Man page Source code
create_quadrants Source code
ctd_to_sce Man page Source code
delayedarray_normalize Man page Source code
drop.uninformative.genes Source code
drop_nonexpressed_cells Man page Source code
drop_nonexpressed_genes Man page Source code
drop_uninformative_genes Man page Source code
dt_to_df Man page Source code
ewce_expression_data Man page Source code
ewce_plot Man page Source code
example_bootstrap_results Man page Source code
example_transcriptome_results Man page Source code
extract_matrix Man page Source code
filter_ctd_genes Man page Source code
filter_genes_without_1to1_homolog Man page Source code
filter_nonorthologs Man page Source code
filter_variance_quantiles Man page Source code
fix_bad_hgnc_symbols Man page Source code
fix_bad_mgi_symbols Man page Source code
fix_celltype_names Man page Source code
fix_celltype_names_full_results Man page Source code
generate_bootstrap_plots Man page Source code
generate_bootstrap_plots_for_transcriptome Man page Source code
generate_celltype_data Man page Source code
generate_controlled_bootstrap_geneset Man page Source code
get_celltype_table Man page Source code
get_ctd_levels Man page Source code
get_ctd_matrix_names Man page Source code
get_exp_data_for_bootstrapped_genes Man page Source code
get_graph_theme Man page Source code
get_sig_results Man page Source code
get_summed_proportions Man page Source code
is_32bit Man page Source code
is_celltypedataset Man page Source code
is_ctd_standardised Man page Source code
is_delayed_array Man page Source code
is_matrix Man page Source code
is_sparse_matrix Man page Source code
list_species Man page Source code
load_rdata Man page Source code
max_ctd_depth Man page Source code
merge_ctd Man page Source code
merge_sce Man page Source code
merge_sce_list Man page Source code
merge_two_expfiles Man page Source code
merged_ewce Man page Source code
message_parallel Man page Source code
messager Man page Source code
myScalesComma Man page Source code
plot_bootstrap_plots Man page Source code
plot_ctd Man page Source code
plot_log_bootstrap_distributions Man page Source code
plot_with_bootstrap_distributions Man page Source code
prep.dendro Man page Source code
prep_dendro Man page Source code
prepare_genesize_control_network Man page Source code
prepare_tt Man page Source code
rNorm Source code
report_dge Man page Source code
report_results Man page Source code
run_deseq2 Man page Source code
run_limma Man page Source code
run_mast Man page Source code
sce_lists_apply Man page Source code
sce_merged_apply Man page Source code
sct_normalize Man page Source code
standardise_ctd Man page Source code
to_dataframe Man page Source code
to_delayed_array Man page Source code
to_sparse_matrix Man page Source code
NathanSkene/EWCE documentation built on Aug. 6, 2022, 9:27 a.m.