API for unmarked
Models for Data from Unmarked Animals

Global functions
.estimateInds Source code
E_loglam Source code
LRT Man page
LRT,unmarkedFit,unmarkedFit-method Man page
MesoCarnivores Man page
RMSE_MAE Source code
SE Man page
SE,linCombOrBackTrans-method Man page
SE,unmarkedEstimate-method Man page
SE,unmarkedFit-method Man page
SE,unmarkedFitList-method Man page
SE,unmarkedModSel-method Man page
SE-methods Man page
SSE Man page
SSE,unmarkedFit-method Man page
SSE,unmarkedFitGDR-method Man page
SSE,unmarkedFitOccuMulti-method Man page
SSE-methods Man page
Switzerland Man page
[,unmarkedEstimateList,ANY,ANY,ANY-method Man page
[,unmarkedFit,ANY,ANY,ANY-method Man page
[,unmarkedFrame,list,missing,missing-method Man page
[,unmarkedFrame,missing,numeric,missing-method Man page
[,unmarkedFrame,numeric,missing,missing-method Man page
[,unmarkedFrame,numeric,numeric,missing-method Man page
[,unmarkedFrameDSO,numeric,missing,missing-method Man page
[,unmarkedFrameGDR,logical,missing,missing-method Man page
[,unmarkedFrameGDR,missing,numeric,missing-method Man page
[,unmarkedFrameGDR,numeric,missing,missing-method Man page
[,unmarkedFrameGDS,numeric,missing,missing-method Man page
[,unmarkedFrameGMM,numeric,missing,missing-method Man page
[,unmarkedFrameGPC,missing,numeric,missing-method Man page
[,unmarkedFrameGPC,numeric,missing,missing-method Man page
[,unmarkedFrameOccuMS,numeric,missing,missing-method Man page
[,unmarkedFrameOccuMulti,missing,numeric,missing-method Man page
[,unmarkedFrameOccuMulti,numeric,missing,missing-method Man page
[,unmarkedFrameOccuTTD,missing,numeric,missing-method Man page
[,unmarkedFrameOccuTTD,numeric,missing,missing-method Man page
[,unmarkedFramePCO,missing,numeric,missing-method Man page
[,unmarkedFramePCO,numeric,missing,missing-method Man page
[,unmarkedMultFrame,missing,numeric,missing-method Man page
[,unmarkedMultFrame,numeric,missing,missing-method Man page
[,unmarkedPostSamples,ANY,ANY,ANY-method Man page
[-methods Man page
addParm Source code
add_covariates Source code
backTransform Man page
backTransform,unmarkedEstimate-method Man page
backTransform,unmarkedFit-method Man page
backTransform,unmarkedLinComb-method Man page
backTransform-methods Man page
birds Man page
blank_umFit Source code
bootstrap_data Source code
bup Man page
bup,unmarkedRanef-method Man page
capitalize Source code
catbird Man page
catbird.bin Man page
check_coefs Source code
check_formula Source code
check_no_support Source code
check_type Source code
clean_up_covs Source code
cloglog Source code
cloglog.grad Source code
cn Source code
coef,linCombOrBackTrans-method Man page
coef,unmarkedEstimate-method Man page
coef,unmarkedFit-method Man page
coef,unmarkedFitList-method Man page
coef,unmarkedModSel-method Man page
coef-methods Man page
colext Man page Source code
colext.fit Source code
computeMPLElambda Man page Source code
confint,unmarkedBackTrans-method Man page
confint,unmarkedEstimate-method Man page
confint,unmarkedFit-method Man page
confint,unmarkedLinComb-method Man page
confint,unmarkedRanef-method Man page
confint-methods Man page
coordinates Man page
coordinates,unmarkedFrame-method Man page
coords Man page
covsToDF Source code
crossVal Man page
crossVal,unmarkedFit-method Man page
crossVal,unmarkedFitList-method Man page
crossVal-methods Man page
crossbill Man page
cruz Man page
csvToUMF Man page Source code
dateToObs Source code
delaware_bfow_2001-2006 Man page
depDoublePiFun Source code
detFuns Man page
df_to_factor Source code
diff_dir Source code
distsamp Man page Source code
distsampOpen Man page Source code
doublePiFun Man page Source code
drexp Man page Source code
drhaz Man page Source code
drhn Man page Source code
drop_final_year Source code
dxexp Man page Source code
dxhaz Man page Source code
dxhn Man page Source code
dzip Source code
exp1 Source code
explink Source code
fitList Man page Source code
fit_TMB Source code
fitted,unmarkedFit-method Man page
fitted,unmarkedFitColExt-method Man page
fitted,unmarkedFitDS-method Man page
fitted,unmarkedFitDailMadsen-method Man page
fitted,unmarkedFitGDR-method Man page
fitted,unmarkedFitGMM-method Man page
fitted,unmarkedFitNmixTTD-method Man page
fitted,unmarkedFitOccu-method Man page
fitted,unmarkedFitOccuFP-method Man page
fitted,unmarkedFitOccuMS-method Man page
fitted,unmarkedFitOccuMulti-method Man page
fitted,unmarkedFitOccuRN-method Man page
fitted,unmarkedFitOccuTTD-method Man page
fitted,unmarkedFitPCount-method Man page
fitted-methods Man page
formatDelta Source code
formatDistData Man page
formatLong Man page Source code
formatMult Man page Source code
formatWide Man page Source code
frog2001pcru Man page
frog2001pfer Man page
frogs Man page
gdistremoval Man page Source code
gdistsamp Man page Source code
genFixedNLL Source code
generate_data Source code
generate_random_effects Source code
getB Man page
getB,unmarkedFitOccuFP-method Man page
getB-methods Man page
getCombs Source code
getData Man page
getData,unmarkedFit-method Man page
getDistCP Source code
getFP Man page
getFP,unmarkedFitOccuFP-method Man page
getFP-methods Man page
getP Man page
getP,unmarkedFit-method Man page
getP,unmarkedFitColExt-method Man page
getP,unmarkedFitDS-method Man page
getP,unmarkedFitDSO-method Man page
getP,unmarkedFitGDR-method Man page
getP,unmarkedFitGDS-method Man page
getP,unmarkedFitGMM-method Man page
getP,unmarkedFitGPC-method Man page
getP,unmarkedFitMMO-method Man page
getP,unmarkedFitMPois-method Man page
getP,unmarkedFitOccuFP-method Man page
getP,unmarkedFitOccuMS-method Man page
getP,unmarkedFitOccuMulti-method Man page
getP,unmarkedFitOccuTTD-method Man page
getP,unmarkedFitPCO-method Man page
getP-methods Man page
getP.bar Source code
getPsi Source code
getSS Source code
getUA Source code
getY Man page
getY,unmarkedFit-method Man page
getY,unmarkedFitColExt-method Man page
getY,unmarkedFitOccu-method Man page
getY,unmarkedFitOccuMulti-method Man page
getY,unmarkedFitOccuRN-method Man page
getY,unmarkedFrame-method Man page
get_Z Source code
get_b_vector Source code
get_base_newdata Source code
get_coef_info Source code
get_cov_seq Source code
get_fixed_names Source code
get_group_vars Source code
get_joint_cov Source code
get_lik_trans Source code
get_mlogit Source code
get_nrandom Source code
get_randvar_info Source code
get_ranef_inputs Source code
get_reTrms Source code
get_summary_df Source code
get_vars Source code
get_xlev Source code
gf Man page
gf.data Man page
gf.obs Man page
gmultmix Man page Source code
gpcount Man page Source code
grexp Man page Source code
grhaz Man page Source code
grhn Man page Source code
gxexp Man page Source code
gxhaz Man page Source code
gxhn Man page Source code
has_random Source code
head,unmarkedFrame-method Man page
hessian Man page
hessian,unmarkedFit-method Man page
hist,unmarkedFitDS-method Man page
hist,unmarkedFrameDS-method Man page
identLink Source code
identLinkGrad Source code
imputeMissing Man page Source code
invertHessian Source code
is_tmb_fit Source code
issj Man page
jay Man page
lambda2psi Man page Source code
linearComb Man page
linearComb,unmarkedEstimate,matrixOrVector-method Man page
linearComb,unmarkedFit,matrixOrVector-method Man page
linearComb-methods Man page
linetran Man page
logLik Man page
logLik,unmarkedFit-method Man page
logistic Source code
logistic.grad Source code
makeCrPiFun Man page Source code
makeCrPiFunMb Man page Source code
makeCrPiFunMh Man page Source code
makePiFuns Man page
makeRemPiFun Man page Source code
make_mod_matrix Source code
mallard Man page
mallard.obs Man page
mallard.site Man page
mallard.y Man page
mapInfo Man page Source code
masspcru Man page
meanstate Source code
mle Man page
mle,unmarkedFit-method Man page
modSel Man page
modSel,unmarkedFitList-method Man page
modSel-methods Man page
multinomPois Man page Source code
multmixOpen Man page Source code
nagR2 Source code
name_to_ind Source code
names,unmarkedEstimateList-method Man page
names,unmarkedFit-method Man page
newdata_from_raster Source code
nllFun Man page
nllFun,unmarkedFit-method Man page
nll_distsamp Source code
nll_distsampOpen Source code
nll_gdistremoval Source code
nll_gdistsamp Source code
nll_gmultmix Source code
nll_gpcount Source code
nll_multinomPois Source code
nll_multmixOpen Source code
nll_nmixTTD Source code
nll_occu Source code
nll_occuMS Source code
nll_occuMulti Source code
nll_occuMulti_loglik Source code
nll_occuPEN Source code
nll_occuRN Source code
nll_occuTTD Source code
nll_pcount Source code
nll_pcountOpen Source code
nmixTTD Man page Source code
nonparboot Man page
nonparboot,unmarkedFit-method Man page
nonparboot,unmarkedFitColExt-method Man page
nonparboot,unmarkedFitDS-method Man page
nonparboot,unmarkedFitDailMadsen-method Man page
nonparboot,unmarkedFitGDR-method Man page
nonparboot,unmarkedFitGDS-method Man page
nonparboot,unmarkedFitGMM-method Man page
nonparboot,unmarkedFitMPois-method Man page
nonparboot,unmarkedFitNmixTTD-method Man page
nonparboot,unmarkedFitOccu-method Man page
nonparboot,unmarkedFitOccuMulti-method Man page
nonparboot,unmarkedFitOccuPEN-method Man page
nonparboot,unmarkedFitOccuPEN_CV-method Man page
nonparboot,unmarkedFitOccuRN-method Man page
nonparboot,unmarkedFitOccuTTD-method Man page
nonparboot,unmarkedFitPCount-method Man page
nonparboot-methods Man page
numSites Man page
numSites,unmarkedFrame-method Man page
numY Man page
numY,unmarkedFrame-method Man page
obsCovs Man page
obsCovs,unmarkedFrame-method Man page
obsCovs<- Man page
obsCovs<-,unmarkedFrame-method Man page
obsNum Man page
obsNum,unmarkedFrame-method Man page
obsToY Man page
obsToY,unmarkedFrame-method Man page
obsToY<- Man page
obsToY<-,unmarkedFrame-method Man page
occu Man page Source code
occuFP Man page Source code
occuMS Man page Source code
occuMulti Man page Source code
occuMultiLogLik Source code
occuPEN Man page Source code
occuPEN_CV Man page Source code
occuRN Man page Source code
occuTTD Man page Source code
optimizePenalty Man page
optimizePenalty,unmarkedFitOccuMulti-method Man page
optimizePenalty-methods Man page
ovendata Man page
ovendata.list Man page
pExp Source code
pHalfnorm Source code
pHazard Source code
parboot Man page
parboot,unmarkedFit-method Man page
parboot,unmarkedFitOccuMulti-method Man page
parmNames Source code
parse_func_name Source code
partitionHoldout Source code
partitionKfold Source code
partitionLeaveOneOut Source code
pcount Man page Source code
pcount.spHDS Man page
pcountOpen Man page Source code
pcru.bin Man page
pcru.data Man page
pcru.y Man page
pfer.bin Man page
pfer.data Man page
pfer.y Man page
piFuns Man page
plot,parboot,missing-method Man page
plot,profile,missing-method Man page
plot,unmarkedFit,missing-method Man page
plot,unmarkedFitGDR,missing-method Man page
plot,unmarkedFitOccuMulti,missing-method Man page
plot,unmarkedFrame,missing-method Man page
plot,unmarkedFrameOccuMulti,missing-method Man page
plot,unmarkedFrameOccuTTD,missing-method Man page
plot,unmarkedPowerList,ANY-method Man page
plot,unmarkedRanef,missing-method Man page
plotEffects Man page
plotEffects,unmarkedFit-method Man page
plotEffects-methods Man page
plotEffectsData Man page
plotEffectsData,unmarkedFit-method Man page
plotEffectsData-methods Man page
pointtran Man page
posteriorSamples Man page
posteriorSamples,unmarkedFit-method Man page
posteriorSamples,unmarkedRanef-method Man page
posteriorSamples-methods Man page
powerAnalysis Man page Source code
predict Man page
predict,ANY-method Man page
predict,unmarkedFit-method Man page
predict,unmarkedFitColExt-method Man page
predict,unmarkedFitDSO-method Man page
predict,unmarkedFitGDR-method Man page
predict,unmarkedFitGDS-method Man page
predict,unmarkedFitGMM-method Man page
predict,unmarkedFitList-method Man page
predict,unmarkedFitNmixTTD-method Man page
predict,unmarkedFitOccuFP-method Man page
predict,unmarkedFitOccuMS-method Man page
predict,unmarkedFitOccuMulti-method Man page
predict,unmarkedFitOccuTTD-method Man page
predict,unmarkedFitPCO-method Man page
predict,unmarkedFitPCount-method Man page
predict,unmarkedRanef-method Man page
predict-methods Man page
print.unmarkedPostSamples Source code
print_randvar_info Source code
profile,unmarkedFit-method Man page
profileCI Source code
projected Man page
projected,unmarkedFitColExt-method Man page
projection Man page
projection,unmarkedFrame-method Man page
randomTerms Man page
randomTerms,unmarkedEstimate-method Man page
randomTerms,unmarkedFit-method Man page
randomTerms-methods Man page
ranef Man page
ranef,unmarkedFitColExt-method Man page
ranef,unmarkedFitDS-method Man page
ranef,unmarkedFitDailMadsen-method Man page
ranef,unmarkedFitGDR-method Man page
ranef,unmarkedFitGDS-method Man page
ranef,unmarkedFitGMM-method Man page
ranef,unmarkedFitGMMorGDS-method Man page
ranef,unmarkedFitGPC-method Man page
ranef,unmarkedFitMPois-method Man page
ranef,unmarkedFitNmixTTD-method Man page
ranef,unmarkedFitOccu-method Man page
ranef,unmarkedFitOccuFP-method Man page
ranef,unmarkedFitOccuMS-method Man page
ranef,unmarkedFitOccuMulti-method Man page
ranef,unmarkedFitOccuRN-method Man page
ranef,unmarkedFitOccuTTD-method Man page
ranef,unmarkedFitPCO-method Man page
ranef,unmarkedFitPCount-method Man page
ranef-methods Man page
raster_from_predict Source code
removalPiFun Man page Source code
replace_estimates Source code
residuals,unmarkedFit-method Man page
residuals,unmarkedFitGDR-method Man page
residuals,unmarkedFitOccu-method Man page
residuals,unmarkedFitOccuFP-method Man page
residuals,unmarkedFitOccuMulti-method Man page
residuals,unmarkedFitOccuRN-method Man page
residuals,unmarkedFitOccuTTD-method Man page
rmultinom2 Source code
rowProds Source code
rzip Source code
sampleSize Man page
sampleSize,unmarkedFit-method Man page
shinyPower Man page Source code
show,parboot-method Man page
show,unmarkedBackTrans-method Man page
show,unmarkedCrossVal-method Man page
show,unmarkedCrossValList-method Man page
show,unmarkedEstimate-method Man page
show,unmarkedEstimateList-method Man page
show,unmarkedFit-method Man page
show,unmarkedFrame-method Man page
show,unmarkedFrameOccuMulti-method Man page
show,unmarkedFrameOccuTTD-method Man page
show,unmarkedLinComb-method Man page
show,unmarkedModSel-method Man page
show,unmarkedMultFrame-method Man page
show,unmarkedPostSamples-method Man page
show,unmarkedPower-method Man page
show,unmarkedPowerList-method Man page
show,unmarkedRanef-method Man page
sight2perpdist Man page Source code
sigma Man page
sigma,unmarkedEstimate-method Man page
sigma,unmarkedFit-method Man page
sigma-methods Man page
sigma_names Source code
simOpenN Source code
simulate,character-method Man page
simulate,unmarkedFitColExt-method Man page
simulate,unmarkedFitDS-method Man page
simulate,unmarkedFitDailMadsen-method Man page
simulate,unmarkedFitGDR-method Man page
simulate,unmarkedFitGDS-method Man page
simulate,unmarkedFitGMM-method Man page
simulate,unmarkedFitGPC-method Man page
simulate,unmarkedFitMPois-method Man page
simulate,unmarkedFitNmixTTD-method Man page
simulate,unmarkedFitOccu-method Man page
simulate,unmarkedFitOccuFP-method Man page
simulate,unmarkedFitOccuMS-method Man page
simulate,unmarkedFitOccuMulti-method Man page
simulate,unmarkedFitOccuRN-method Man page
simulate,unmarkedFitOccuTTD-method Man page
simulate,unmarkedFitPCO-method Man page
simulate,unmarkedFitPCount-method Man page
simulate-methods Man page
siteCovs Man page
siteCovs,unmarkedFrame-method Man page
siteCovs<- Man page
siteCovs<-,unmarkedFrame-method Man page
smoothed Man page
smoothed,unmarkedFitColExt-method Man page
split_formula Source code
summary,unmarkedEstimate-method Man page
summary,unmarkedEstimateList-method Man page
summary,unmarkedFit-method Man page
summary,unmarkedFitDS-method Man page
summary,unmarkedFitList-method Man page
summary,unmarkedFrame-method Man page
summary,unmarkedFrameDS-method Man page
summary,unmarkedFrameOccuMulti-method Man page
summary,unmarkedFrameOccuTTD-method Man page
summary,unmarkedModSel-method Man page
summary,unmarkedMultFrame-method Man page
summary,unmarkedPower-method Man page
summary,unmarkedPowerList-method Man page
tmbfit_has_random Source code
truncateToBinary Source code
umf_to_factor Source code
unmarked Man page
unmarked-package Man page
unmarkedCrossVal-class Man page
unmarkedCrossValList-class Man page
unmarkedEstimate Man page Source code
unmarkedEstimate-class Man page
unmarkedEstimateList Source code
unmarkedEstimateList-class Man page
unmarkedFit Man page Source code
unmarkedFit-class Man page
unmarkedFitDS-class Man page
unmarkedFitDSO-class Man page
unmarkedFitGMM-class Man page
unmarkedFitList-class Man page
unmarkedFitMMO-class Man page
unmarkedFitMPois-class Man page
unmarkedFitNmixTTD-class Man page
unmarkedFitOccu-class Man page
unmarkedFitOccuFP-class Man page
unmarkedFitOccuMS-class Man page
unmarkedFitOccuMulti-class Man page
unmarkedFitOccuPEN-class Man page
unmarkedFitOccuPEN_CV-class Man page
unmarkedFitOccuTTD-class Man page
unmarkedFitPCO-class Man page
unmarkedFitPCount-class Man page
unmarkedFrame Man page Source code
unmarkedFrame-class Man page
unmarkedFrameDS Man page Source code
unmarkedFrameDS-class Man page
unmarkedFrameDSO Man page Source code
unmarkedFrameDSO-class Man page
unmarkedFrameGDR Man page Source code
unmarkedFrameGDR-class Man page
unmarkedFrameGDS Man page Source code
unmarkedFrameGDS-class Man page
unmarkedFrameGMM Man page Source code
unmarkedFrameGMM-class Man page
unmarkedFrameGPC Man page Source code
unmarkedFrameGPC-class Man page
unmarkedFrameMMO Man page Source code
unmarkedFrameMMO-class Man page
unmarkedFrameMPois Man page Source code
unmarkedFrameMPois-class Man page
unmarkedFrameOccu Man page Source code
unmarkedFrameOccu-class Man page
unmarkedFrameOccuFP Man page Source code
unmarkedFrameOccuMS Man page Source code
unmarkedFrameOccuMS-class Man page
unmarkedFrameOccuMulti Man page Source code
unmarkedFrameOccuMulti-class Man page
unmarkedFrameOccuTTD Man page Source code
unmarkedFrameOccuTTD-class Man page
unmarkedFramePCO Man page Source code
unmarkedFramePCO-class Man page
unmarkedFramePCount Man page Source code
unmarkedFramePCount-class Man page
unmarkedModSel-class Man page
unmarkedMultFrame Man page Source code
unmarkedMultFrame-class Man page
unmarkedPostSamples-class Man page
unmarkedPower-class Man page
unmarkedPower-methods Man page
unmarkedPowerList Man page
unmarkedPowerList,list-method Man page
unmarkedPowerList,unmarkedFit-method Man page
unmarkedPowerList-class Man page
unmarkedPowerList-methods Man page
unmarkedRanef-class Man page
update,unmarkedFit-method Man page
update,unmarkedFitColExt-method Man page
update,unmarkedFitDailMadsen-method Man page
update,unmarkedFitGDR-method Man page
update,unmarkedFitGMM-method Man page
update,unmarkedFitNmixTTD-method Man page
update,unmarkedFitOccuMS-method Man page
update,unmarkedFitOccuMulti-method Man page
update,unmarkedFitOccuTTD-method Man page
update,unmarkedPower-method Man page
use_tmb_bootstrap Source code
validunmarkedFrame Source code
var_data Source code
vcov,linCombOrBackTrans-method Man page
vcov,unmarkedEstimate-method Man page
vcov,unmarkedFit-method Man page
vcov,unmarkedFitOccuMulti-method Man page
vcov-methods Man page
vcov_TMB Source code
vif Man page Source code
wald Source code
woodthrush Man page
woodthrush.bin Man page
yearlySiteCovs Man page
yearlySiteCovs,unmarkedMultFrame-method Man page
yearlySiteCovs<- Man page
yearlySiteCovs<-,unmarkedMultFrame-method Man page
unmarked documentation built on July 9, 2023, 5:44 p.m.