universalmotif-package	universalmotif-pkg
add_gap	utils-motif
add_multifreq	add_multifreq
ArabidopsisMotif	ArabidopsisMotif
ArabidopsisPromoters	ArabidopsisPromoters
as.data.frame	reexports
as.data.frame,universalmotif-method	universalmotif-class
average_ic	utils-motif
calc_complexity	utils-sequence
calc_windows	utils-sequence
cbind	reexports
cbind,universalmotif-method	universalmotif-class
colMeans	reexports
colMeans,universalmotif-method	universalmotif-class
colnames	reexports
colnames,universalmotif-method	universalmotif-class
colSums	reexports
colSums,universalmotif-method	universalmotif-class
compare_columns	utils-motif
compare_motifs	compare_motifs
compare_motifs2	compare_motifs2
consensus_to_ppm	utils-motif
consensus_to_ppmAA	utils-motif
convert_motifs	convert_motifs
convert_motifs,AsIs-method	convert_motifs
convert_motifs,ICMatrix-method	convert_motifs
convert_motifs,list-method	convert_motifs
convert_motifs,matrix-method	convert_motifs
convert_motifs,Motif-method	convert_motifs
convert_motifs,MotifList-method	convert_motifs
convert_motifs,pcm-method	convert_motifs
convert_motifs,pfm-method	convert_motifs
convert_motifs,PFMatrix-method	convert_motifs
convert_motifs,PWM-method	convert_motifs
convert_motifs,pwm-method	convert_motifs
convert_motifs,PWMatrix-method	convert_motifs
convert_motifs,TFFMFirst-method	convert_motifs
convert_motifs,universalmotif-method	convert_motifs
convert_motifs,XMatrixList-method	convert_motifs
convert_type	convert_type
count_klets	utils-sequence
create_motif	create_motif
create_motif,AAStringSet-method	create_motif
create_motif,BStringSet-method	create_motif
create_motif,character-method	create_motif
create_motif,DNAStringSet-method	create_motif
create_motif,matrix-method	create_motif
create_motif,missing-method	create_motif
create_motif,numeric-method	create_motif
create_motif,RNAStringSet-method	create_motif
create_sequences	create_sequences
dedup_hits	dedup_hits
enrich_motifs	enrich_motifs
enrich_motifs2	enrich_motifs2
examplemotif	examplemotif
examplemotif2	examplemotif2
filter_motifs	filter_motifs
fontDFroboto	fontDFroboto
get_bkg	get_bkg
get_consensus	utils-motif
get_consensusAA	utils-motif
get_klets	utils-sequence
get_matches	utils-motif
get_scores	utils-motif
icm_to_ppm	utils-motif
implant_motifs	implant_motifs
initialize,universalmotif-method	universalmotif-class
JASPAR2018_CORE_DBSCORES	JASPAR2018_CORE_DBSCORES
log_string_pval	utils-motif
make_DBscores	make_DBscores
mask_ranges	utils-sequence
mask_seqs	utils-sequence
match_bkg	match_bkg
meme_alph	utils-sequence
merge_motifs	merge_motifs
merge_motifs2	merge_motifs2
merge_similar	merge_similar
merge_similar2	merge_similar2
motif_coocc	motif_coocc
motif_finder	motif_finder
motif_peaks	motif_peaks
motif_pvalue	motif_pvalue
motif_range	utils-motif
motif_rc	motif_rc
motif_score	utils-motif
motif_tree	motif_tree
motif_tree2	motif_tree2
ncol	reexports
ncol,universalmotif-method	universalmotif-class
normalize	reexports
normalize,universalmotif-method	universalmotif-class
nrow	reexports
nrow,universalmotif-method	universalmotif-class
pcm_to_ppm	utils-motif
plot_match_bkg	plot_match_bkg
plot_motif_peaks	plot_motif_peaks
position_icscore	utils-motif
ppm_to_icm	utils-motif
ppm_to_pcm	utils-motif
ppm_to_pwm	utils-motif
prob_match	utils-motif
prob_match_bkg	utils-motif
pwm_to_ppm	utils-motif
read_cisbp	read_cisbp
read_homer	read_homer
read_jaspar	read_jaspar
read_matrix	read_matrix
read_meme	read_meme
read_motifs	read_motifs
read_transfac	read_transfac
read_uniprobe	read_uniprobe
reexports	reexports
requires_update	tidy-motifs
round_motif	utils-motif
rowMeans	reexports
rowMeans,universalmotif-method	universalmotif-class
rownames	reexports
rownames,universalmotif-method	universalmotif-class
rowSums	reexports
rowSums,universalmotif-method	universalmotif-class
run_meme	run_meme
sample_sites	sample_sites
scan_sequences	scan_sequences
scan_sequences2	scan_sequences2
score_match	utils-motif
sequence_complexity	sequence_complexity
show,universalmotif-method	universalmotif-class
shuffle_motifs	shuffle_motifs
shuffle_sequences	shuffle_sequences
shuffle_string	utils-sequence
slide_fun	utils-sequence
subset	reexports
subset,universalmotif-method	universalmotif-class
summarise_motifs	utils-motif
switch_alph	switch_alph
tidy-motifs	tidy-motifs
to_df	tidy-motifs
to_list	tidy-motifs
trim_cwm	trim_cwm
trim_motifs	trim_motifs
ungap	utils-motif
universalmotif	universalmotif-class
universalmotif-class	universalmotif-class
universalmotif-pkg	universalmotif-pkg
update_motifs	tidy-motifs
utilities	utilities
utils-motif	utils-motif
utils-sequence	utils-sequence
view_logo	view_logo
view_motifs	view_motifs
view_motifs2	view_motifs2
window_string	utils-sequence
write_homer	write_homer
write_jaspar	write_jaspar
write_matrix	write_matrix
write_meme	write_meme
write_motifs	write_motifs
write_transfac	write_transfac
[,universalmotif-method	universalmotif-class
[<-,universalmotif-method	universalmotif-class
