All functions

add_res_to_merging_list()

Add to results to merging list

bin_columns_into_quantiles()

bin_columns_into_quantiles

bin_specificity_into_quantiles()

bin_specificity_into_quantiles

bootstrap_enrichment_test()

Bootstrap celltype enrichment test

check_ewce_genelist_inputs()

check_ewce_genelist_inputs

controlled_geneset_enrichment()

Celltype controlled geneset enrichment

convert_new_ewce_to_old()

convert_new_ewce_to_old

convert_old_ewce_to_new()

convert_old_ewce_to_new

drop_uninformative_genes()

drop_uninformative_genes

ewce_expression_data()

Bootstrap celltype enrichment test for transcriptome data

ewce_plot()

Plot EWCE results

filter_genes_without_1to1_homolog()

filter_genes_without_1to1_homolog

fix_bad_hgnc_symbols()

fix_bad_hgnc_symbols - Given an expression matrix, wherein the rows are supposed to be HGNC symbols, find those symbols which are not official HGNC symbols, then correct them if possible. Return the expression matrix with corrected symbols.

fix_bad_mgi_symbols()

fix_bad_mgi_symbols - Given an expression matrix, wherein the rows are supposed to be MGI symbols, find those symbols which are not official MGI symbols, then check in the MGI synonm database for whether they match to a proper MGI symbol. Where a symbol is found to be an aliases for a gene that is already in the dataset, the combined reads are summed together.

generate_bootstrap_plots()

Generate bootstrap plots

generate_bootstrap_plots_for_transcriptome()

Generate bootstrap plots

generate_celltype_data()

generate_celltype_data

generate_controlled_bootstrap_geneset()

generate_controlled_bootstrap_geneset

get_celltype_table()

get_celltype_table

get_summed_proportions()

Get summed proportions

merge_two_expfiles()

merge_two_expfiles

merged_ewce()

Multiple EWCE results from multiple studies

prep_dendro()

prep_dendro

prepare_genesize_control_network()

Prepare genesize control network