NMF-package	NMF-package
$,NMF-method	NMF-class
$<-,NMF-method	NMF-class
.atrack	atrack
.atrack,ANY-method	atrack
.atrack,character-method	atrack
.atrack,data.frame-method	atrack
.atrack,ExpressionSet-method	bioc
.atrack,matrix-method	atrack
.atrack-methods	atrack
.basis	basis-coef-methods
.basis,NMF-method	basis-coef-methods
.basis,NMFfit-method	basis-coef-methods
.basis,NMFstd-method	basis-coef-methods
.basis-methods	basis-coef-methods
.basis<-	basis-coef-methods
.basis<-,NMF,matrix-method	basis-coef-methods
.basis<-,NMFfit,matrix-method	basis-coef-methods
.basis<-,NMFstd,matrix-method	basis-coef-methods
.basis<--methods	basis-coef-methods
.coef	basis-coef-methods
.coef,NMF-method	basis-coef-methods
.coef,NMFfit-method	basis-coef-methods
.coef,NMFstd-method	basis-coef-methods
.coef-methods	basis-coef-methods
.coef<-	basis-coef-methods
.coef<-,NMF,matrix-method	basis-coef-methods
.coef<-,NMFfit,matrix-method	basis-coef-methods
.coef<-,NMFstd,matrix-method	basis-coef-methods
.coef<--methods	basis-coef-methods
.DollarNames,NMF-method	NMF-class
.fcnnls	dot-fcnnls
.getRNG	RNG
.getRNG,NMFfitXn-method	RNG
.getRNG-methods	RNG
.use.grid.patch	grid
adata	atrack
advanced-NMF	advanced
aheatmap	aheatmap
alength	atrack
algorithm	algorithmic
algorithm,NMFfit-method	algorithmic
algorithm,NMFfitXn-method	algorithmic
algorithm,NMFList-method	algorithm-commaNMFList-method
algorithm,NMFSeed-method	algorithmic
algorithm,NMFStrategyFunction-method	algorithmic
algorithm-methods	algorithmic
algorithm<-	algorithmic
algorithm<-,NMFfit,ANY-method	algorithmic
algorithm<-,NMFSeed,function-method	algorithmic
algorithm<-,NMFStrategyFunction,function-method	algorithmic
algorithm<--methods	algorithmic
algorithmic-NMF	algorithmic
amargin	atrack
anames	atrack
annotationTrack	atrack
atrack	atrack
basis	basis-coef-methods
basis,ANY-method	basis-coef-methods
basis,NMF-method	basis-coef-methods
basis,NMFfitXn-method	basis-coef-methods
basis-methods	basis-coef-methods
basis<-	basis-coef-methods
basis<-,NMF-method	basis-coef-methods
basis<--methods	basis-coef-methods
basiscor	basiscor
basiscor,matrix,NMF-method	basiscor
basiscor,NMF,matrix-method	basiscor
basiscor,NMF,missing-method	basiscor
basiscor,NMF,NMF-method	basiscor
basiscor-methods	basiscor
basismap	heatmaps
basismap,NMF-method	heatmaps
basismap,NMFfitX-method	heatmaps
basismap-methods	heatmaps
basisnames	dimnames
basisnames,ANY-method	dimnames
basisnames-methods	dimnames
basisnames<-	dimnames
basisnames<-,ANY-method	dimnames
basisnames<--methods	dimnames
bioc-NMF	bioc
brunet-nmf	KL-nmf
brunet_R-nmf	KL-nmf
bterms	terms
bterms<-	terms-internal
bterms<-,NMFstd-method	terms-internal
bterms<--methods	terms-internal
c,NMF-method	c-commaNMF-method
canFit	canFit
canFit,character,ANY-method	canFit
canFit,NMFStrategy,character-method	canFit
canFit,NMFStrategy,NMF-method	canFit
canFit-methods	canFit
ccBreaks	ccBreaks
ccPalette	ccPalette
ccRamp	ccRamp
ccSpec	ccSpec
checkErrors	checkErrors
cluster_mat	cluster_mat
coef	basis-coef-methods
coef,NMF-method	basis-coef-methods
coef,NMFfitXn-method	basis-coef-methods
coef-methods	basis-coef-methods
coef<-	basis-coef-methods
coef<-,NMF-method	basis-coef-methods
coef<--methods	basis-coef-methods
coefficients	basis-coef-methods
coefficients,NMF-method	basis-coef-methods
coefficients-methods	basis-coef-methods
coefmap	heatmaps
coefmap,NMF-method	heatmaps
coefmap,NMFfitX-method	heatmaps
coefmap-methods	heatmaps
compare	algorithmic
compare,list-method	nmf-compare
compare,NMFfit-method	nmf-compare
compare,NMFfitXn-method	algorithmic
compare-methods	algorithmic
compare-NMF	nmf-compare
connectivity	connectivity
connectivity,ANY-method	connectivity
connectivity,factor-method	connectivity
connectivity,NMF-method	connectivity
connectivity,numeric-method	connectivity
connectivity-methods	connectivity
consensus	connectivity
consensus,NMF-method	connectivity
consensus,NMFfitX-method	connectivity
consensus,NMFfitX1-method	consensus-commaNMFfitX1-method
consensus,NMFfitXn-method	consensus-commaNMFfitXn-method
consensus-methods	connectivity
consensushc	consensushc
consensushc,matrix-method	consensushc
consensushc,NMF-method	consensushc
consensushc,NMFfitX-method	consensushc
consensushc-methods	consensushc
consensusmap	heatmaps
consensusmap,list-method	nmf-compare
consensusmap,matrix-method	heatmaps
consensusmap,NMF-method	heatmaps
consensusmap,NMF.rank-method	nmf-compare
consensusmap,NMFfitX-method	heatmaps
consensusmap-methods	heatmaps
cophcor	cophcor
cophcor,matrix-method	cophcor
cophcor,NMFfitX-method	cophcor
cophcor-methods	cophcor
cterms	terms
cterms<-	terms-internal
cterms<-,NMFstd-method	terms-internal
cterms<--methods	terms-internal
current.vpPath_patched	grid
cutdendro	cutdendro
deviance	deviance
deviance,NMF-method	deviance
deviance,NMFfit-method	deviance
deviance,NMFfitX-method	deviance
deviance,NMFStrategy-method	deviance
deviance-methods	deviance
dim,NMF-method	dims
dim,NMFfitXn-method	dims
dim-NMF	dims
dimnames,NMF-method	dimnames
dimnames-NMF	dimnames
dimnames<-,NMF-method	dimnames
dispersion	dispersion
dispersion,matrix-method	dispersion
dispersion,NMFfitX-method	dispersion
dispersion-methods	dispersion
entropy	purity
entropy,ANY,ANY-method	purity
entropy,factor,ANY-method	purity
entropy,NMFfitXn,ANY-method	purity
entropy,table,missing-method	purity
entropy-methods	purity
esGolub	esGolub
evar	rss
evar,ANY-method	rss
evar-methods	rss
existsNMFMethod	registry-algorithm
existsNMFSeed	nmfSeed
extractFeatures	scores
extractFeatures,matrix-method	scores
extractFeatures,NMF-method	scores
extractFeatures-methods	scores
fcnnls	fcnnls
fcnnls,ANY,numeric-method	fcnnls
fcnnls,matrix,matrix-method	fcnnls
fcnnls,numeric,matrix-method	fcnnls
fcnnls-methods	fcnnls
featureNames,NMF-method	bioc
featureNames,NMFfitX-method	bioc
featureNames<-,NMF-method	bioc
featureScore	scores
featureScore,matrix-method	scores
featureScore,NMF-method	scores
featureScore-methods	scores
fit	fit
fit,NMFfit-method	fit
fit,NMFfitX-method	fit
fit,NMFfitX1-method	fit
fit,NMFfitXn-method	fit
fit-methods	fit
fit<-	fit
fit<-,NMFfit,NMF-method	fit
fit<--methods	fit
fitted	fitted
fitted,NMF-method	fitted
fitted,NMFfit-method	fitted
fitted,NMFns-method	fitted
fitted,NMFOffset-method	fitted
fitted,NMFstd-method	fitted
fitted-methods	fitted
ForeachBackend	foreach
ForeachBackend,ANY-method	foreach
ForeachBackend,character-method	foreach
ForeachBackend,cluster-method	foreach
ForeachBackend,doMPI_backend-method	foreach
ForeachBackend,doParallelMC_backend-method	foreach
ForeachBackend,doParallelSNOW_backend-method	foreach
ForeachBackend,doParallel_backend-method	foreach
ForeachBackend,doPSOCK_backend-method	foreach
ForeachBackend,missing-method	foreach
ForeachBackend,mpicluster-method	foreach
ForeachBackend,NULL-method	foreach
ForeachBackend,numeric-method	foreach
ForeachBackend-methods	foreach
Frobenius-nmf	Frobenius-nmf
getDoBackend	foreach
getDoParHosts	foreach
getDoParHosts,ANY-method	foreach
getDoParHosts-methods	foreach
getDoParNHosts	foreach
getNMFMethod	registry-algorithm
getNMFSeed	nmfSeed
getRNG1	RNG
getRNG1,NMFfitX-method	RNG
getRNG1,NMFfitX1-method	RNG
getRNG1,NMFfitXn-method	RNG
getRNG1-methods	RNG
gfile	gfile
gVariable	parallel
hasBasis	types
hasCoef	types
hasTrack	residuals
heatmap-NMF	heatmaps
hostfile	parallel
ibasis	terms
ibterms	terms
ibterms,NMF-method	terms
ibterms,NMFfit-method	terms
ibterms,NMFfitX-method	terms
ibterms,NMFstd-method	terms
ibterms-methods	terms
icoef	terms
icterms	terms
icterms,NMF-method	terms
icterms,NMFfit-method	terms
icterms,NMFstd-method	terms
icterms-methods	terms
initialize,NMFOffset-method	NMFOffset-class
is.atrack	atrack
is.empty.nmf	types
is.mixed	NMFStrategy-class
is.nmf	types
is.partial.nmf	types
isNMFfit	types
iterms	terms
KL-nmf	KL-nmf
lee-nmf	Frobenius-nmf
lee_R-nmf	Frobenius-nmf
loadings,NMF-method	basis-coef-methods
logs	algorithmic
logs,ANY-method	algorithmic
logs-methods	algorithmic
lsNMF-nmf	lsNMF-nmf
lverbose	lverbose
match_atrack	match_atrack
metagenes	bioc
metagenes<-	bioc
metaHeatmap	NMF-defunct
metaHeatmap,matrix-method	NMF-defunct
metaHeatmap,NMF-method	NMF-defunct
metaHeatmap,NMFfitX-method	NMF-defunct
metaHeatmap-methods	NMF-defunct
metaprofiles	bioc
metaprofiles<-	bioc
methods-NMF	registry-algorithm
minfit	fit
minfit,NMFfit-method	fit
minfit,NMFfitX-method	fit
minfit,NMFfitX1-method	fit
minfit,NMFfitXn-method	fit
minfit-methods	fit
misc	NMF-class
modelname	algorithmic
modelname,ANY-method	algorithmic
modelname,NMFfit-method	algorithmic
modelname,NMFfitXn-method	algorithmic
modelname,NMFStrategy-method	algorithmic
modelname-methods	algorithmic
name	Strategy-class
name,Strategy-method	Strategy-class
name-methods	Strategy-class
name<-	Strategy-class
name<-,Strategy,character-method	Strategy-class
name<--methods	Strategy-class
nbasis	dims
nbasis,ANY-method	dims
nbasis,NMFfitXn-method	dims
nbasis-methods	dims
nbterms	terms
ncterms	terms
neq.constraints.inplace	inplace
niter	algorithmic
niter,NMFfit-method	algorithmic
niter-methods	algorithmic
niter<-	algorithmic
niter<-,NMFfit,numeric-method	algorithmic
niter<--methods	algorithmic
nmeta	bioc
NMF	NMF-package
nmf	nmf
nmf,data.frame,ANY,ANY-method	nmf
nmf,ExpressionSet,ANY,ANY-method	bioc
nmf,formula,ANY,ANY-method	nmf
nmf,matrix,data.frame,ANY-method	nmf
nmf,matrix,ExpressionSet,ANY-method	bioc
nmf,matrix,matrix,ANY-method	nmf
nmf,matrix,missing,ANY-method	nmf
nmf,matrix,NMF,ANY-method	nmf
nmf,matrix,NULL,ANY-method	nmf
nmf,matrix,numeric,character-method	nmf
nmf,matrix,numeric,function-method	nmf
nmf,matrix,numeric,list-method	nmf
nmf,matrix,numeric,missing-method	nmf
nmf,matrix,numeric,NMFStrategy-method	nmf
nmf,matrix,numeric,NULL-method	nmf
NMF-class	NMF-class
NMF-defunct	NMF-defunct
NMF-deprecated	NMF-deprecated
nmf-methods	nmf
nmf.equal	nmf.equal
nmf.equal,list,list-method	nmf.equal
nmf.equal,list,missing-method	nmf.equal
nmf.equal,NMF,NMF-method	nmf.equal
nmf.equal,NMF,NMFfit-method	nmf.equal
nmf.equal,NMF,NMFfitX-method	nmf.equal
nmf.equal,NMFfit,NMF-method	nmf.equal
nmf.equal,NMFfit,NMFfit-method	nmf.equal
nmf.equal,NMFfitX,NMF-method	nmf.equal
nmf.equal,NMFfitX1,NMFfitX1-method	nmf.equal
nmf.equal-methods	nmf.equal
nmf.getOption	options
nmf.options	options
nmf.printOptions	options
nmf.resetOptions	options
nmf.stop.connectivity	stop-NMF
nmf.stop.iteration	stop-NMF
nmf.stop.stationary	stop-NMF
nmf.stop.threshold	stop-NMF
nmfAlgorithm	nmfAlgorithm
nmfAlgorithm.brunet	KL-nmf
nmfAlgorithm.brunet_R	KL-nmf
nmfAlgorithm.Frobenius	Frobenius-nmf
nmfAlgorithm.KL	KL-nmf
nmfAlgorithm.lee	Frobenius-nmf
nmfAlgorithm.lee_R	Frobenius-nmf
nmfAlgorithm.lsNMF	lsNMF-nmf
nmfAlgorithm.nsNMF	nsNMF-nmf
nmfAlgorithm.nsNMF_R	nsNMF-nmf
nmfAlgorithm.offset	offset-nmf
nmfAlgorithm.offset_R	offset-nmf
nmfAlgorithm.SNMF_L	SNMF-nmf
nmfAlgorithm.SNMF_R	SNMF-nmf
nmfApply	nmfApply
nmfArgs	nmfFormals
nmfCheck	nmfCheck
nmfDistance	deviance
nmfEstimateRank	nmfEstimateRank
NMFfit	NMFfit-class
NMFfit-class	NMFfit-class
NMFfitX	NMFfitX
NMFfitX,list-method	NMFfitX
NMFfitX,NMFfit-method	NMFfitX
NMFfitX,NMFfitX-method	NMFfitX
NMFfitX-class	NMFfitX-class
NMFfitX-methods	NMFfitX
NMFfitX1-class	NMFfitX1-class
NMFfitXn-class	NMFfitXn-class
nmfFormals	nmfFormals
NMFList-class	NMFList-class
nmfModel	nmfModel
nmfModel,ANY,ExpressionSet-method	bioc
nmfModel,data.frame,data.frame-method	nmfModel
nmfModel,ExpressionSet,ANY-method	bioc
nmfModel,formula,ANY-method	nmfModel
nmfModel,matrix,ANY-method	nmfModel
nmfModel,matrix,matrix-method	nmfModel
nmfModel,missing,ANY-method	nmfModel
nmfModel,missing,missing-method	nmfModel
nmfModel,NULL,ANY-method	nmfModel
nmfModel,numeric,matrix-method	nmfModel
nmfModel,numeric,missing-method	nmfModel
nmfModel,numeric,numeric-method	nmfModel
nmfModel-methods	nmfModel
nmfModels	nmfModel
NMFns-class	NMFns-class
nmfObject	nmfObject
NMFOffset-class	NMFOffset-class
nmfRegisterAlgorithm	setNMFMethod
nmfReport	nmfReport
NMFSeed	setNMFSeed
nmfSeed	nmfSeed
NMFSeed,character-method	setNMFSeed
NMFSeed,NMFSeed-method	setNMFSeed
NMFSeed-class	NMFSeed-class
NMFSeed-methods	setNMFSeed
NMFstd-class	NMFstd-class
NMFStop	stop-NMF
NMFStrategy	NMFStrategy
NMFStrategy,character,character-method	NMFStrategy
NMFStrategy,character,function-method	NMFStrategy
NMFStrategy,character,missing-method	NMFStrategy
NMFStrategy,character,NMFStrategy-method	NMFStrategy
NMFStrategy,missing,character-method	NMFStrategy
NMFStrategy,NMFStrategy,missing-method	NMFStrategy
NMFStrategy,NULL,character-method	NMFStrategy
NMFStrategy,NULL,NMFStrategy-method	NMFStrategy
NMFStrategy-class	NMFStrategy-class
NMFStrategy-methods	NMFStrategy
NMFStrategyFunction-class	NMFStrategyFunction-class
NMFStrategyIterative-class	NMFStrategyIterative-class
nmfWrapper	nmfWrapper
nmf_update.brunet	KL-nmf
nmf_update.brunet_R	KL-nmf
nmf_update.euclidean	nmf_update_euclidean
nmf_update.euclidean.h	nmf_update_euclidean
nmf_update.euclidean.h_R	nmf_update_euclidean
nmf_update.euclidean.w	nmf_update_euclidean
nmf_update.euclidean.w_R	nmf_update_euclidean
nmf_update.euclidean_offset.h	offset-nmf
nmf_update.euclidean_offset.w	offset-nmf
nmf_update.KL	nmf_update_KL
nmf_update.KL.h	nmf_update_KL
nmf_update.KL.h_R	nmf_update_KL
nmf_update.KL.w	nmf_update_KL
nmf_update.KL.w_R	nmf_update_KL
nmf_update.lee	Frobenius-nmf
nmf_update.lee_R	Frobenius-nmf
nmf_update.lsnmf	lsNMF-nmf
nmf_update.ns	nsNMF-nmf
nmf_update.ns_R	nsNMF-nmf
nmf_update.offset	offset-nmf
nmf_update.offset_R	offset-nmf
nneg	nneg
nneg,ExpressionSet-method	bioc
nneg,matrix-method	nneg
nneg,NMF-method	nneg
nneg-methods	nneg
nrun	algorithmic
nrun,ANY-method	algorithmic
nrun,NMFfit-method	algorithmic
nrun,NMFfitX-method	algorithmic
nrun,NMFfitX1-method	algorithmic
nrun,NMFfitXn-method	algorithmic
nrun-methods	algorithmic
nsNMF_R-nmf	nsNMF-nmf
nterms	terms
objective	algorithmic
objective,NMFfit-method	objective-commaNMFfit-method
objective,NMFStrategy-method	NMFStrategy-class
objective-methods	algorithmic
objective<-	algorithmic
objective<-,NMFfit,ANY-method	algorithmic
objective<-,NMFStrategy,character-method	NMFStrategy-class
objective<-,NMFStrategy,function-method	NMFStrategy-class
objective<--methods	algorithmic
offset,NMFfit-method	offset-commaNMFfit-method
offset,NMFOffset-method	offset-commaNMFOffset-method
offset_R-nmf	offset-nmf
options-NMF	options
parallel-NMF	parallel
parse_formula	parse_formula
plot,NMFfit,missing-method	plot-commaNMFfit-commamissing-method
plot,NMFList,missing-method	nmf-compare
plot.NMF.consensus	consensus-commaNMFfitXn-method
plot.NMF.rank	nmfEstimateRank
pmax.inplace	inplace
posneg	nneg
predict	predict
predict,NMF-method	predict
predict,NMFfitX-method	predict
predict-methods	predict
profcor	basiscor
profcor,matrix,NMF-method	basiscor
profcor,NMF,matrix-method	basiscor
profcor,NMF,missing-method	basiscor
profcor,NMF,NMF-method	basiscor
profcor-methods	basiscor
profplot	profplot
profplot.default	profplot
purity	purity
purity,ANY,ANY-method	purity
purity,factor,ANY-method	purity
purity,NMFfitXn,ANY-method	purity
purity,table,missing-method	purity
purity-methods	purity
randomize	randomize
register	foreach
registerDoBackend	foreach
removeNMFMethod	registry-algorithm
removeNMFSeed	setNMFSeed
residuals	residuals
residuals,NMFfit-method	residuals
residuals,NMFfitX-method	residuals
residuals-methods	residuals
residuals<-	residuals
residuals<-,NMFfit-method	residuals
residuals<--methods	residuals
revPalette	revPalette
rmatrix	rmatrix
rmatrix,ANY-method	rmatrix
rmatrix,NMF-method	rmatrix
rmatrix,numeric-method	rmatrix
rmatrix-methods	rmatrix
rnmf	rnmf
rnmf,ANY,data.frame-method	rnmf
rnmf,ANY,ExpressionSet-method	bioc
rnmf,ANY,matrix-method	rnmf
rnmf,formula,ANY-method	rnmf
rnmf,missing,missing-method	rnmf
rnmf,NMF,missing-method	rnmf
rnmf,NMF,numeric-method	rnmf
rnmf,NMFOffset,numeric-method	rnmf
rnmf,numeric,missing-method	rnmf
rnmf,numeric,numeric-method	rnmf
rnmf-methods	rnmf
rposneg	nneg
rposneg,ExpressionSet-method	bioc
rposneg,matrix-method	nneg
rposneg,NMF-method	nneg
rposneg-methods	nneg
rss	rss
rss,ANY-method	rss
rss,matrix-method	rss
rss-methods	rss
run	algorithmic
run,NMFStrategy,ExpressionSet,ANY-method	bioc
run,NMFStrategy,matrix,NMF-method	NMFStrategy
run,NMFStrategy,matrix,NMFfit-method	NMFStrategy
run,NMFStrategyFunction,matrix,NMFfit-method	NMFStrategy
run,NMFStrategyIterative,matrix,NMFfit-method	NMFStrategy
run,NMFStrategyIterativeX,matrix,NMFfit-method	NMFStrategy
run,NMFStrategyOctave,matrix,NMFfit-method	NMFStrategy
run-methods	algorithmic
runtime	algorithmic
runtime,NMFfit-method	algorithmic
runtime,NMFList-method	runtime-commaNMFList-method
runtime-methods	algorithmic
runtime.all	algorithmic
runtime.all,NMFfit-method	algorithmic
runtime.all,NMFfitX-method	algorithmic
runtime.all,NMFfitXn-method	runtime.all-commaNMFfitXn-method
runtime.all-methods	algorithmic
sampleNames,NMF-method	bioc
sampleNames,NMFfitX-method	bioc
sampleNames<-,NMF,ANY-method	bioc
scale.NMF	scale.NMF
scoef	basis-coef-methods
scoef,matrix-method	basis-coef-methods
scoef,NMF-method	basis-coef-methods
scoef-methods	basis-coef-methods
seed	seed
seed,ANY,ANY,character-method	seed
seed,ANY,ANY,function-method	seed
seed,ANY,ANY,missing-method	seed
seed,ANY,ANY,NULL-method	seed
seed,ANY,ANY,numeric-method	seed
seed,ANY,list,NMFSeed-method	seed
seed,ANY,numeric,NMFSeed-method	seed
seed,ExpressionSet,ANY,ANY-method	bioc
seed,matrix,NMF,NMFSeed-method	seed
seed-methods	seed
seeding	algorithmic
seeding,NMFfit-method	algorithmic
seeding,NMFfitXn-method	algorithmic
seeding-methods	algorithmic
seeding<-	algorithmic
seeding<-,NMFfit-method	algorithmic
seeding<--methods	algorithmic
selectNMFMethod	registry-algorithm
seqtime	algorithmic
seqtime,NMFfitXn-method	algorithmic
seqtime,NMFList-method	algorithmic
seqtime-methods	algorithmic
setDoBackend	foreach
setNMFMethod	setNMFMethod
setNMFSeed	setNMFSeed
setupBackend	setup
setupLibPaths	setup
setupRNG	setup
setupSharedMemory	setup
setupTempDirectory	setup
show,NMF-method	show-commaNMF-method
show,NMFfit-method	show-commaNMFfit-method
show,NMFfitX-method	show-commaNMFfitX-method
show,NMFfitX1-method	show-commaNMFfitX1-method
show,NMFfitXn-method	show-commaNMFfitXn-method
show,NMFList-method	show-commaNMFList-method
show,NMFns-method	show-commaNMFns-method
show,NMFOffset-method	show-commaNMFOffset-method
show,NMFSeed-method	show-commaNMFSeed-method
show,NMFStrategy-method	NMFStrategy-class
show,NMFStrategyIterative-method	show-commaNMFStrategyIterative-method
silhouette.NMF	silhouette.NMF
smoothing	smoothing
SNMF/L-nmf	SNMF-nmf
SNMF/R-nmf	SNMF-nmf
sparseness	sparseness
sparseness,matrix-method	sparseness
sparseness,NMF-method	sparseness
sparseness,numeric-method	sparseness
sparseness-methods	sparseness
staticVar	staticVar
stop-NMF	stop-NMF
Strategy-class	Strategy-class
str_args	utils
summary	assess
summary,NMF-method	assess
summary,NMFfit-method	assess
summary,NMFfitX-method	assess
summary,NMFList-method	nmf-compare
summary-methods	assess
summary-NMF	assess
syntheticNMF	syntheticNMF
t.NMF	t.NMF
trackError	residuals
tryViewport	grid
ts_eval	parallel
ts_tempfile	parallel
txtProgressBar	txtProgressBar
utils-NMF	utils
which.best	advanced
wrss	lsNMF-nmf
[,NMF-method	subset-NMF
