16S	16S
Alphaproteobacteria16S	16S
as.graph	TRACDS-class
as.graph.TRACDS	TRACDS-class
as.igraph	TRACDS-class
as.igraph.TRACDS	TRACDS-class
build	build
build,EMM,data.frame-method	build
build,EMM,matrix-method	build
build,EMM,numeric-method	build
c	combine
c,EMM-method	combine
cluster	cluster
cluster,tNN,data.frame-method	cluster
cluster,tNN,matrix-method	cluster
cluster,tNN,numeric-method	cluster
clusters	tNN-class
clusters,tNN-method	tNN-class
cluster_centers	tNN-class
cluster_centers,tNN-method	tNN-class
cluster_counts	tNN-class
cluster_counts,tNN-method	tNN-class
compact	update
compact,TRACDS-method	update
copy	EMM-class
copy,EMM-method	EMM-class
copy,tNN-method	tNN-class
copy,TRACDS-method	TRACDS-class
current_state	TRACDS-class
current_state,TRACDS-method	TRACDS-class
Derwent	Derwent
DSC_EMM	DSC_EMM
DSC_tNN	DSC_EMM
EMM	EMM
EMM-class	EMM-class
EMMsim	EMMsim
EMMsim_sequence_test	EMMsim
EMMsim_sequence_train	EMMsim
EMMsim_test	EMMsim
EMMsim_train	EMMsim
EMMTraffic	EMMTraffic
fade	fade
fade,EMM,missing,missing-method	fade
fade,EMM,missing,numeric-method	fade
fade,EMM,numeric,missing-method	fade
fade,EMM,numeric,numeric-method	fade
find_clusters	find_clusters
find_clusters,tNN,data.frame-method	find_clusters
find_clusters,tNN,matrix-method	find_clusters
find_clusters,tNN,numeric-method	find_clusters
get_EMM	DSC_EMM
initial_transition	transition
initial_transition,TRACDS-method	transition
last_clustering	tNN-class
last_clustering,tNN-method	tNN-class
merge_clusters	merge
merge_clusters,EMM,character-method	merge
merge_clusters,EMM,integer-method	merge
Mollicutes16S	16S
nclusters	tNN-class
nclusters,tNN-method	tNN-class
nstates	TRACDS-class
nstates,TRACDS-method	TRACDS-class
ntransitions	TRACDS-class
ntransitions,TRACDS-method	TRACDS-class
object.size,EMM-method	EMM
object.size,tNN-method	tNN-class
object.size,TRACDS-method	TRACDS-class
plot	plot.EMM
plot,EMM,missing-method	plot.EMM
plot,tNN,missing-method	tNN-class
plot,TRACDS,missing-method	TRACDS-class
predict	predict
predict,TRACDS-method	predict
prune	prune
prune,EMM-method	prune
rare_clusters	prune
rare_clusters,tNN-method	prune
rare_transitions	prune
rare_transitions,TRACDS-method	prune
recluster	recluster
recluster_hclust	recluster
recluster_hclust,EMM-method	recluster
recluster_kmeans	recluster
recluster_kmeans,EMM-method	recluster
recluster_pam	recluster
recluster_pam,EMM-method	recluster
recluster_reachability	recluster
recluster_reachability,EMM-method	recluster
recluster_tNN	recluster
recluster_tNN,EMM-method	recluster
recluster_transitions	recluster
recluster_transitions,EMM-method	recluster
remove_clusters	remove
remove_clusters,EMM,character-method	remove
remove_selftransitions	remove
remove_selftransitions,EMM-method	remove
remove_transitions	remove
remove_transitions,EMM,character,character-method	remove
remove_transitions,EMM,matrix,missing-method	remove
reset	update
reset,TRACDS-method	update
score	score
score,EMM,data.frame-method	score
score,EMM,EMM-method	score
score,EMM,matrix-method	score
score,EMM,numeric-method	score
set_EMM	DSC_EMM
show,EMM-method	EMM-class
show,TRACDS-method	TRACDS-class
size	EMM-class
size,EMM-method	EMM-class
smooth_transitions	smooth_transitions
smooth_transitions,EMM-method	smooth_transitions
states	TRACDS-class
states,TRACDS-method	TRACDS-class
StreamClustering-class	tNN-class
synthetic_stream	synthetic_stream
tNN	tNN-class
tNN-class	tNN-class
TRAC	TRAC-class
TRACDS	TRACDS-class
TRACDS-class	TRACDS-class
transition	transition
transition,TRACDS,character,character-method	transition
transition,TRACDS,data.frame,missing-method	transition
transition,TRACDS,matrix,missing-method	transition
transitions	TRACDS-class
transitions,TRACDS-method	TRACDS-class
transition_matrix	transition
transition_matrix,TRACDS-method	transition
transition_table	transition_table
transition_table,EMM,data.frame-method	transition_table
transition_table,EMM,matrix-method	transition_table
transition_table,EMM,numeric-method	transition_table
update	update
update,TRACDS-method	update
