secr-package	secr-package
addCovariates	addCovariates
addSightings	addSightings
addTelemetry	addTelemetry
adjustVarD	chatnj
AIC.secr	AIC.secr
AIC.secrlist	AIC.secr
AICcompatible	AICcompatible
AICcompatible.secr	AICcompatible
AICcompatible.secrlist	AICcompatible
alive	capthistfn
alongtransect	capthistfn
animalID	capthistfn
append.capthist	rbind.capthist
ARL	homerange
as.array	as.data.frame
as.array.capthist	as.data.frame
as.data.frame	as.data.frame
as.data.frame.capthist	as.data.frame
as.data.frame.traps	as.data.frame
as.mask	as.mask
as.popn	as.popn
attenuationplot	plot.secr
autoini	autoini
bias.D	suggest.buffer
binCovariate	binCovariate
blackbear	blackbear
blackbear.0	blackbear
blackbear.h2bk	blackbear
blackbearCH	blackbear
boundarytoSF	secr-internal
buffer.contour	secr-deprecated
bufferBiasCheck	suggest.buffer
bufferContour	contour
capped	detector
captdata	secrdemo
capthist	capthist
captXY	secrdemo
centroids	homerange
chat.nj	chatnj
chat.nk	chatnk
circular.p	circular
circular.r	circular
clip.hex	make.tri
clone	clone
clone.capthist	clone
clone.default	clone
clone.popn	clone
closedN	closedN
closure.test	closure
cluster	cluster
cluster.centres	trap.builder
cluster.counts	trap.builder
clusterID	cluster
clusterID<-	cluster
clustertrap	cluster
clustertrap<-	cluster
coef.secr	coef.secr
collate	collate
collate.ipsecr	collate
collate.secr	collate
collate.secrlist	collate
confint.secr	confint.secr
Coulombe	coulombe
count	detector
counts	summary.capthist
covariates	covariates
covariates<-	covariates
CV	CV
CVa	CV
CVa0	CV
CVpdot	pdot
D.designdata	D.designdata
dbar	homerange
deermouse	deermouse
deermouse.ESG	deermouse
deermouse.WSG	deermouse
defunct	secr-defunct
deleteMaskPoints	deletemaskpoints
derived	derivedMS
derived.secr	derivedMS
derived.secrlist	derivedMS
derivedCluster	empirical
derivedDcoef	derivedDsurface
derivedDcoef.secr	derivedDsurface
derivedDcoef.secrlist	derivedDsurface
derivedDfit	derivedDsurface
derivedDsurface	derivedDsurface
derivedExternal	empirical
derivedMash	empirical
derivednj	empirical
derivedSession	empirical
derivedSystematic	secr-defunct
details	details
detectfn	detectfn
detectfnplot	plot.secr
Detection functions	detectfn
detector	detector
detector<-	detector
detectpar	predict.secr
detectpar.secr	predict.secr
deviance	deviance.secr
deviance.secr	deviance.secr
df.residual	deviance.secr
df.residual.secr	deviance.secr
Dfn2	secr-internal
discretize	discretize
distancetotrap	distancetotrap
Dsurface	Dsurface
Dsurface-class	Dsurface
edist	utility
effort	usage
ellipse.bvn	ellipse.secr
ellipse.secr	ellipse.secr
empirical.varD	empirical
Enk	chatnk
esa	derivedMS
esa.plot	secr-deprecated
esa.secr	derivedMS
esaPlot	esaPlot
expected.n	expected.n
extractMoves	extractMoves
FAQ	FAQ
fillNA	fillNA
fixedbeta	details
Fletcher.chat	Fletcher.chat
flip	transformations
flip.popn	transformations
flip.traps	transformations
FTHL.0	hornedlizard
FTHL.CL	hornedlizard
fx.total	secr-deprecated
fxi	fxi
fxi.contour	secr-deprecated
fxi.mode	secr-deprecated
fxi.secr	fxi
fxiContour	fxi
fxiMode	fxi
fxTotal	fxTotal
fxTotal.secr	fxTotal
getMeanSD	utility
gridCells	gridcells
GSM	blackbear
hcov	hcov
head.capthist	head
head.Dsurface	head
head.mask	head
head.traps	head
hist.MCgof	MCgof.methods
hornedlizard	hornedlizard
hornedlizardCH	hornedlizard
housemouse	coulombe
infraCH	skink
insertdim	secr.design.MS
interference	nontarget
intervals	manip
intervals<-	manip
invlogit	logit
ip.secr	secr-defunct
join	join
kfn	kfn
lineoCH	skink
list.secr.fit	list.secr.fit
LLonly	details
LLsurface	LLsurface
LLsurface.secr	LLsurface
logit	logit
logLik.secr	AIC.secr
logmultinom	logmultinom
LR.test	LRtest
LStraps	skink
make.capthist	make.capthist
make.circle	make.traps
make.grid	make.traps
make.lacework	make.lacework
make.lookup	secr.design.MS
make.mask	make.mask
make.newdata	secr-defunct
make.poly	make.traps
make.spcosa	make.spcosa
make.systematic	make.systematic
make.telemetry	make.traps
make.transect	make.traps
make.tri	make.tri
makeNewData	makeNewData
makeNewData.default	makeNewData
makeNewData.secr	makeNewData
makeStart	makeStart
markocc	sighting
markocc<-	sighting
mash	trap.builder
mask	mask
mask-class	mask
mask.check	mask.check
maskarea	utility
masklength	utility
masksize	utility
maxdistance	details
MCgof	MCgof
MCgof.secr	MCgof
MCgof.secrlist	MCgof
miscparm	details
MMDM	homerange
model.average	secr-defunct
modelAverage	modelAverage
modelAverage.secr	modelAverage
modelAverage.secrlist	modelAverage
moves	homerange
ms	ms
MS.capthist	rbind.capthist
ms.default	ms
ms.mask	ms
ms.secr	ms
multi	detector
Multi-core processing	Parallel
ncores	Parallel
nearesttrap	distancetotrap
nedist	utility
newdata	makeNewData
nk	chatnk
noise	signal
noise.capthist	signal
noise<-	signal
noneuc	userdist
nontarget	nontarget
nontarget<-	nontarget
occasion	capthistfn
occasionKey	occasionKey
ORL	homerange
ovenbird	ovenbird
ovenbird.model.1	ovenbird
ovenbird.model.D	ovenbird
ovenbird.model.Dl	ovenbird
ovenCH	ovenbird
ovenCHp	ovenbird
ovenmask	ovenbird
ovensong	ovensong
ovensong.model.1	ovensong
ovensong.model.2	ovensong
OVpossum	OVpossum
OVpossumCH	OVpossum
par.derived	secr-deprecated
par.region.N	secr-deprecated
par.secr.fit	secr-deprecated
Parallel	Parallel
param	details
pdot	pdot
pdot.contour	secr-deprecated
pdotContour	contour
pfn	secr-defunct
PG	PG
plot.capthist	plot.capthist
plot.Dsurface	plot.mask
plot.mask	plot.mask
plot.MCgof	MCgof.methods
plot.popn	plot.popn
plot.Rsurface	plot.mask
plot.secr	plot.secr
plot.secrlist	plot.secr
plot.secrtest	secrtest
plot.traps	plot.traps
plotMaskEdge	plotmaskedge
plotMCP	plot.capthist
pmixProfileLL	pmixProfileLL
pointsInPolygon	pointsInPolygon
polyarea	polyarea
polygon	detector
polygonX	detector
polyID	trapsfn
polyID<-	trapsfn
popn	popn
population size	region.N
possum	possum
possum.model.0	possum
possum.model.Ds	possum
possumarea	possum
possumCH	possum
possummask	possum
possumremovalarea	possum
predict.secr	predict.secr
predict.secrlist	predict.secr
predictDlambda	trend
predictDsurface	predictDsurface
print.capthist	print.capthist
print.Dsurface	Dsurface
print.MCgof	MCgof.methods
print.secr	print.secr
print.secrtest	secrtest
print.summary.capthist	summary.capthist
print.summary.mask	summary.mask
print.summary.popn	summary.popn
print.summary.traps	summary.traps
print.traps	print.traps
proximity	detector
random numbers	secrRNG
randomDensity	randomHabitat
randomHabitat	randomHabitat
rast	raster2
rast,Dsurface-method	raster2
rast,mask-method	raster2
raster	raster2
raster,Dsurface-method	raster2
raster,mask-method	raster2
rbind.capthist	rbind.capthist
rbind.mask	subset.mask
rbind.popn	rbind.popn
rbind.traps	rbind.traps
read.capthist	DENSITY
read.DA	DA
read.mask	read.mask
read.SPACECAP	secr-defunct
read.telemetry	read.telemetry
read.traps	read.traps
rectangularMask	rectangularMask
reduce	reduce
reduce.capthist	reduce.capthist
reduce.default	reduce
reduce.traps	reduce.capthist
region.N	region.N
region.N.secr	region.N
region.N.secrlist	region.N
rlnormCV	utility
RMarkInput	RMarkInput
rotate	transformations
rotate.popn	transformations
rotate.traps	transformations
RPSV	homerange
RSE	RSE
Rsurface	Rsurface
saveprogress	details
score.table	score.test
score.test	score.test
searcharea	trapsfn
secr	secr-package
secr-defunct	secr-defunct
secr-deprecated	secr-deprecated
secr-version5	secr-version5
secr.design.MS	secr.design.MS
secr.fit	secr.fit
secr.make.newdata	secr-defunct
secr.refit	secr.refit
secr.test	secr.test
secrdemo	secrdemo
secrdemo.0	secrdemo
secrdemo.b	secrdemo
secrdemo.CL	secrdemo
secrlist	AIC.secr
secrRNG	secrRNG
secrtest	secrtest
seed	secrRNG
session	session
session<-	session
sessionlabels	manip
sessionlabels<-	manip
setNumThreads	setNumThreads
shareFactorLevels	sharefactorlevels
shift	transformations
shift.mask	transformations
shift.popn	transformations
shift.traps	transformations
sighting	sighting
sightingPlot	usagePlot
sightings	sighting
signal	signal
signal.capthist	signal
signal<-	signal
signalCH	ovensong
signalframe	signal
signalframe<-	signal
signalmatrix	signalmatrix
sim.capthist	sim.capthist
sim.detect	sim.secr
sim.popn	sim.popn
sim.resight	sim.capthist
sim.secr	sim.secr
simOU	simOU.capthist
simOU.capthist	simOU.capthist
simulate	sim.secr
simulate.secr	sim.secr
single	detector
skink	skink
smooths	smooths
snip	snip
sort.capthist	sort
sort.mask	sort
spacing	spacing
spacing.mask	spacing
spacing.traps	spacing
spacing<-	spacing
speed	speed
Speed tips	speed
split.capthist	subset.capthist
split.mask	subset.mask
split.traps	subset.traps
spotHeight	plot.mask
stoat.model.EX	stoatDNA
stoat.model.HN	stoatDNA
stoatCH	stoatDNA
stoatDNA	stoatDNA
strip.legend	strip.legend
subset.capthist	subset.capthist
subset.mask	subset.mask
subset.popn	subset.popn
subset.traps	subset.traps
suggest.buffer	suggest.buffer
summary.capthist	summary.capthist
summary.Dsurface	Dsurface
summary.mask	summary.mask
summary.MCgof	MCgof.methods
summary.popn	summary.popn
summary.secr	print.secr
summary.traps	summary.traps
t2r2	homerange
tail.capthist	head
tail.Dsurface	head
tail.mask	head
tail.traps	head
telemetered	capthistfn
telemetrytype	addTelemetry
telemetrytype<-	addTelemetry
telemetryxy	capthistfn
telemetryxy<-	capthistfn
tile	sim.popn
timevaryingcov	timevaryingcov
timevaryingcov<-	timevaryingcov
Tm	sighting
Tm<-	sighting
Tn	sighting
Tn<-	sighting
transect	detector
transectID	trapsfn
transectID<-	trapsfn
transectlength	trapsfn
transectX	detector
transformations	transformations
trap	capthistfn
trap.builder	trap.builder
traps	traps
traps object	traps
traps<-	traps
trapsPerAnimal	homerange
trapXY	secrdemo
trim	trim
trim.default	trim
trim.secr	trim
trim.secrlist	trim
Troubleshooting	troubleshooting
Tu	sighting
Tu<-	sighting
turnover	turnover
unjoin	join
unRMarkInput	RMarkInput
updateCH	updateCH
usage	usage
usage.traps	usage
usage<-	usage
usagePlot	usagePlot
userdist	userdist
vcov.secr	vcov.secr
verify	verify
verify.capthist	verify
verify.default	verify
verify.mask	verify
verify.traps	verify
version5	secr-version5
write.capthist	DENSITY
write.captures	write
write.DA	DA
write.mask	write
write.SPACECAP	secr-defunct
write.traps	write
writeGPS	writeGPS
xy	capthistfn
xy2CH	addTelemetry
xy<-	capthistfn
[.secrlist	AIC.secr
