add_genome_matches	add_genome_matches
add_inverse_strand	add_inverse_strand
add_seq	add_seq
add_target_matches	add_target_matches
bed_to_granges	bed_to_granges
char_to_granges	char_to_granges
double_flank	double_flank
down_flank	up_flank
dt2gr	gr2dt
extend	up_flank
extend_for_pe	extend_for_pe
extend_pe_to_gg	extend_pe_to_gg
extract_matchranges	extract_matchranges
extract_subranges	extract_subranges
find_gg	find_gg
find_primespacers	find_primespacers
find_spacers	find_spacers
genefile_to_granges	genes_to_granges
genes_to_granges	genes_to_granges
gr2dt	gr2dt
has_been_indexed	has_been_indexed
index_genome	index_genome
index_targets	index_targets
plot_intervals	plot_intervals
plot_karyogram	plot_karyogram
read_ranges	write_ranges
score_ontargets	score_ontargets
up_flank	up_flank
write_ranges	write_ranges
