bpplapply	bpplapply
checkCache	checkCache
check_cell_lines	check_cell_lines
check_genome_build	check_genome_build
check_grlist_cols	check_grlist_cols
check_list_names	check_list_names
clean_granges	clean_granges
CnR_H3K27ac	CnR_H3K27ac
CnR_H3K27ac_picard	CnR_H3K27ac_picard
CnT_H3K27ac	CnT_H3K27ac
CnT_H3K27ac_picard	CnT_H3K27ac_picard
compute_consensus_peaks	compute_consensus_peaks
compute_corr	compute_corr
encode_H3K27ac	encode_H3K27ac
EpiCompare	EpiCompare
fig_length	fig_length
fragment_info	fragment_info
gather_files	gather_files
gather_files_names	gather_files_names
get_bpparam	get_bpparam
get_chromHMM_annotation	get_chromHMM_annotation
group_files	group_files
hg19_blacklist	hg19_blacklist
hg38_blacklist	hg38_blacklist
is_granges	is_granges
liftover_grlist	liftover_grlist
messager	messager
message_parallel	message_parallel
overlap_heatmap	overlap_heatmap
overlap_percent	overlap_percent
overlap_stat_plot	overlap_stat_plot
overlap_upset_plot	overlap_upset_plot
peak_info	peak_info
plot_ChIPseeker_annotation	plot_ChIPseeker_annotation
plot_chromHMM	plot_chromHMM
plot_corr	plot_corr
plot_enrichment	plot_enrichment
plot_precision_recall	plot_precision_recall
precision_recall	precision_recall
prepare_genome_builds	prepare_genome_builds
prepare_peaklist	prepare_peaklist
prepare_reference	prepare_reference
read_peaks	read_peaks
rebin_peaks	rebin_peaks
remove_nonstandard_chrom	remove_nonstandard_chrom
save_output	save_output
stopper	stopper
tidy_peakfile	tidy_peakfile
translate_genome	translate_genome
tss_plot	tss_plot
width_boxplot	width_boxplot
write_example_peaks	write_example_peaks
