B C D F G H I J L M N O P R S U V W Y misc
| unmarked-package | Models for Data from Unmarked Animals |
| backTransform | Methods for Function backTransform in Package 'unmarked' |
| backTransform-method | Methods for Function backTransform in Package 'unmarked' |
| backTransform-methods | Methods for Function backTransform in Package 'unmarked' |
| birds | BBS Point Count and Occurrence Data from 2 Bird Species |
| bup | Class '"unmarkedRanef"' |
| bup-method | Class '"unmarkedRanef"' |
| catbird | BBS Point Count and Occurrence Data from 2 Bird Species |
| catbird.bin | BBS Point Count and Occurrence Data from 2 Bird Species |
| coef-method | Methods for Function coef in Package 'unmarked' |
| coef-method | Model selection results from an unmarkedFitList |
| coef-method | Class "unmarkedFitList" |
| coef-methods | Methods for Function coef in Package 'unmarked' |
| colext | Fit the dynamic occupancy model of MacKenzie et. al (2003) |
| computeMPLElambda | Compute the penalty weight for the MPLE penalized likelihood method |
| confint-method | Methods for Function confint in Package 'unmarked' |
| confint-method | Class '"unmarkedRanef"' |
| confint-methods | Methods for Function confint in Package 'unmarked' |
| coordinates | Class "unmarkedFrame" |
| coordinates-method | Class "unmarkedFrame" |
| coords | Class "unmarkedFrame" |
| crossbill | Detection/non-detection data on the European crossbill (_Loxia curvirostra_) |
| crossVal | Cross-validation methods for fitted unmarked models and fit lists |
| crossVal-method | Cross-validation methods for fitted unmarked models and fit lists |
| crossVal-methods | Cross-validation methods for fitted unmarked models and fit lists |
| cruz | Landscape data for Santa Cruz Island |
| csvToUMF | Convert .CSV File to an unmarkedFrame |
| detFuns | Distance-sampling detection functions and associated density functions |
| distsamp | Fit the hierarchical distance sampling model of Royle et al. (2004) |
| distsampOpen | Open population model for distance sampling data |
| doublePiFun | Compute multinomial cell probabilities |
| drexp | Distance-sampling detection functions and associated density functions |
| drhaz | Distance-sampling detection functions and associated density functions |
| drhn | Distance-sampling detection functions and associated density functions |
| dxexp | Distance-sampling detection functions and associated density functions |
| dxhaz | Distance-sampling detection functions and associated density functions |
| dxhn | Distance-sampling detection functions and associated density functions |
| fitList | constructor of unmarkedFitList objects |
| fitted-method | Methods for Function fitted in Package 'unmarked' |
| fitted-methods | Methods for Function fitted in Package 'unmarked' |
| formatDistData | Bin distance data |
| formatLong | Convert between wide and long data formats. |
| formatMult | Create unmarkedMultFrame from Long Format Data Frame |
| formatWide | Convert between wide and long data formats. |
| frog2001pcru | 2001 Delaware North American Amphibian Monitoring Program Data |
| frog2001pfer | 2001 Delaware North American Amphibian Monitoring Program Data |
| frogs | 2001 Delaware North American Amphibian Monitoring Program Data |
| gdistsamp | Fit the generalized distance sampling model of Chandler et al. (2011). |
| getB | Methods for Function getB in Package 'unmarked' |
| getB-method | Methods for Function getB in Package 'unmarked' |
| getB-methods | Methods for Function getB in Package 'unmarked' |
| getData | Class "unmarkedFit" |
| getData-method | Class "unmarkedFit" |
| getFP | Methods for Function getFP in Package 'unmarked' |
| getFP-method | Methods for Function getFP in Package 'unmarked' |
| getFP-methods | Methods for Function getFP in Package 'unmarked' |
| getP | Methods for Function getP in Package 'unmarked' |
| getP-method | Methods for Function getP in Package 'unmarked' |
| getP-methods | Methods for Function getP in Package 'unmarked' |
| getY | Class "unmarkedFrame" |
| getY-method | Class "unmarkedFit" |
| getY-method | Class "unmarkedFrame" |
| gf | Green frog count index data |
| gf.data | Green frog count index data |
| gf.obs | Green frog count index data |
| gmultmix | Generalized multinomial N-mixture model |
| gpcount | Generalized binomial N-mixture model for repeated count data |
| grexp | Distance-sampling detection functions and associated density functions |
| grhaz | Distance-sampling detection functions and associated density functions |
| grhn | Distance-sampling detection functions and associated density functions |
| gxexp | Distance-sampling detection functions and associated density functions |
| gxhaz | Distance-sampling detection functions and associated density functions |
| gxhn | Distance-sampling detection functions and associated density functions |
| head-method | Class "unmarkedFrame" |
| hessian | Class "unmarkedFit" |
| hessian-method | Class "unmarkedFit" |
| hist-method | Class "unmarkedFit" |
| hist-method | Class "unmarkedFrame" |
| imputeMissing | A function to impute missing entries in continuous obsCovs |
| issj | Distance-sampling data for the Island Scrub Jay (_Aphelocoma insularis_) |
| jay | European Jay data from the Swiss Breeding Bird Survey 2002 |
| lambda2psi | Convert Poisson mean (lambda) to probability of occurrence (psi). |
| linearComb | Methods for Function linearComb in Package 'unmarked' |
| linearComb-method | Methods for Function linearComb in Package 'unmarked' |
| linearComb-methods | Methods for Function linearComb in Package 'unmarked' |
| linetran | Simulated line transect data |
| logLik | Class "unmarkedFit" |
| logLik-method | Class "unmarkedFit" |
| LRT | Class "unmarkedFit" |
| LRT-method | Class "unmarkedFit" |
| makeCrPiFun | Create functions to compute multinomial cell probabilities |
| makeCrPiFunMb | Create functions to compute multinomial cell probabilities |
| makeCrPiFunMh | Create functions to compute multinomial cell probabilities |
| makePiFuns | Create functions to compute multinomial cell probabilities |
| makeRemPiFun | Create functions to compute multinomial cell probabilities |
| mallard | Mallard count data |
| mallard.obs | Mallard count data |
| mallard.site | Mallard count data |
| mallard.y | Mallard count data |
| mapInfo | Class "unmarkedFrame" |
| masspcru | Massachusetts North American Amphibian Monitoring Program Data |
| mle | Class "unmarkedFit" |
| mle-method | Class "unmarkedFit" |
| modSel | Model selection results from an unmarkedFitList |
| modSel-method | Class "unmarkedFitList" |
| modSel-methods | Model selection results from an unmarkedFitList |
| multinomPois | Multinomial-Poisson Mixtures Model |
| multmixOpen | Open population multinomial N-mixture model |
| names-method | Class "unmarkedEstimateList" |
| names-method | Class "unmarkedFit" |
| nllFun | Class "unmarkedFit" |
| nllFun-method | Class "unmarkedFit" |
| nmixTTD | Fit N-mixture Time-to-detection Models |
| nonparboot | Nonparametric bootstrapping in unmarked |
| nonparboot-method | Nonparametric bootstrapping in unmarked |
| nonparboot-methods | Nonparametric bootstrapping in unmarked |
| numSites | Class "unmarkedFrame" |
| numSites-method | Class "unmarkedFrame" |
| numY | Class "unmarkedFrame" |
| numY-method | Class "unmarkedFrame" |
| obsCovs | Class "unmarkedFrame" |
| obsCovs-method | Class "unmarkedFrame" |
| obsCovs<- | Class "unmarkedFrame" |
| obsCovs<--method | Class "unmarkedFrame" |
| obsNum | Class "unmarkedFrame" |
| obsNum-method | Class "unmarkedFrame" |
| obsToY | Class "unmarkedFrame" |
| obsToY-method | Class "unmarkedFrame" |
| obsToY<- | Class "unmarkedFrame" |
| obsToY<--method | Class "unmarkedFrame" |
| occu | Fit the MacKenzie et al. (2002) Occupancy Model |
| occuFP | Fit occupancy models when false positive detections occur (e.g., Royle and Link [2006] and Miller et al. [2011]) |
| occuMS | Fit Single-Season and Dynamic Multi-State Occupancy Models |
| occuMulti | Fit the Rota et al. (2016) Multi-species Occupancy Model |
| occuPEN | Fit the MacKenzie et al. (2002) Occupancy Model with the penalized likelihood methods of Hutchinson et al. (2015) |
| occuPEN_CV | Fit the MacKenzie et al. (2002) Occupancy Model with the penalized likelihood methods of Hutchinson et al. (2015) using cross-validation |
| occuRN | Fit the occupancy model of Royle and Nichols (2003) |
| occuTTD | Fit Single-Season and Dynamic Time-to-detection Occupancy Models |
| ovendata | Removal data for the Ovenbird |
| ovendata.list | Removal data for the Ovenbird |
| parboot | Parametric bootstrap method for fitted models inheriting class. |
| parboot-method | Class "unmarkedFit" |
| pcount | Fit the N-mixture model of Royle (2004) |
| pcount.spHDS | Fit spatial hierarchical distance sampling model. |
| pcountOpen | Fit the open N-mixture models of Dail and Madsen and extensions |
| pcru.bin | 2001 Delaware North American Amphibian Monitoring Program Data |
| pcru.data | 2001 Delaware North American Amphibian Monitoring Program Data |
| pcru.y | 2001 Delaware North American Amphibian Monitoring Program Data |
| pfer.bin | 2001 Delaware North American Amphibian Monitoring Program Data |
| pfer.data | 2001 Delaware North American Amphibian Monitoring Program Data |
| pfer.y | 2001 Delaware North American Amphibian Monitoring Program Data |
| piFuns | Compute multinomial cell probabilities |
| plot-method | Parametric bootstrap method for fitted models inheriting class. |
| plot-method | Class "unmarkedFit" |
| plot-method | Class "unmarkedFrame" |
| plot-method | Class '"unmarkedRanef"' |
| pointtran | Simulated point-transect data |
| posteriorSamples | Draw samples from the posterior predictive distribution |
| posteriorSamples-method | Draw samples from the posterior predictive distribution |
| posteriorSamples-methods | Draw samples from the posterior predictive distribution |
| powerAnalysis | Class "unmarkedFrame" |
| powerAnalysis-method | Class "unmarkedFrame" |
| predict | Methods for Function predict in Package 'unmarked' |
| predict-method | Methods for Function predict in Package 'unmarked' |
| predict-methods | Methods for Function predict in Package 'unmarked' |
| profile-method | Class "unmarkedFit" |
| projected | Class "unmarkedFit" |
| projected-method | Class "unmarkedFit" |
| projection | Class "unmarkedFrame" |
| projection-method | Class "unmarkedFrame" |
| randomTerms | Extract estimates of random effect terms |
| randomTerms-method | Extract estimates of random effect terms |
| randomTerms-methods | Extract estimates of random effect terms |
| ranef | Methods for Function 'ranef' in Package 'unmarked' |
| ranef-method | Methods for Function 'ranef' in Package 'unmarked' |
| ranef-methods | Methods for Function 'ranef' in Package 'unmarked' |
| removalPiFun | Compute multinomial cell probabilities |
| residuals-method | Class "unmarkedFit" |
| sampleSize | Class "unmarkedFit" |
| sampleSize-method | Class "unmarkedFit" |
| SE | Methods for Function SE in Package 'unmarked' |
| SE-method | Methods for Function SE in Package 'unmarked' |
| SE-method | Model selection results from an unmarkedFitList |
| SE-method | Class "unmarkedFitList" |
| SE-methods | Methods for Function SE in Package 'unmarked' |
| show-method | Methods for Function backTransform in Package 'unmarked' |
| show-method | Cross-validation methods for fitted unmarked models and fit lists |
| show-method | Methods for Function linearComb in Package 'unmarked' |
| show-method | Model selection results from an unmarkedFitList |
| show-method | Parametric bootstrap method for fitted models inheriting class. |
| show-method | Draw samples from the posterior predictive distribution |
| show-method | Class "unmarkedEstimate" |
| show-method | Class "unmarkedEstimateList" |
| show-method | Class "unmarkedFit" |
| show-method | Class "unmarkedFrame" |
| show-method | Class '"unmarkedRanef"' |
| sight2perpdist | Convert sight distance and sight angle to perpendicular distance. |
| sigma | Extract estimates of random effect standard deviations |
| sigma-method | Extract estimates of random effect standard deviations |
| sigma-methods | Extract estimates of random effect standard deviations |
| simulate-method | Methods for Function simulate in Package 'unmarked' |
| simulate-methods | Methods for Function simulate in Package 'unmarked' |
| siteCovs | Class "unmarkedFrame" |
| siteCovs-method | Class "unmarkedFrame" |
| siteCovs<- | Class "unmarkedFrame" |
| siteCovs<--method | Class "unmarkedFrame" |
| smoothed | Class "unmarkedFit" |
| smoothed-method | Class "unmarkedFit" |
| SSE | Compute Sum of Squared Residuals for a Model Fit. |
| SSE-method | Compute Sum of Squared Residuals for a Model Fit. |
| SSE-methods | Compute Sum of Squared Residuals for a Model Fit. |
| summary-method | Model selection results from an unmarkedFitList |
| summary-method | Class "unmarkedEstimate" |
| summary-method | Class "unmarkedEstimateList" |
| summary-method | Class "unmarkedFit" |
| summary-method | Class "unmarkedFitList" |
| summary-method | Class "unmarkedFrame" |
| Switzerland | Swiss landscape data |
| unmarked | Models for Data from Unmarked Animals |
| unmarkedCrossVal-class | Cross-validation methods for fitted unmarked models and fit lists |
| unmarkedCrossValList-class | Cross-validation methods for fitted unmarked models and fit lists |
| unmarkedEstimate | Class "unmarkedEstimate" |
| unmarkedEstimate-class | Class "unmarkedEstimate" |
| unmarkedEstimateList-class | Class "unmarkedEstimateList" |
| unmarkedFit | Class "unmarkedFit" |
| unmarkedFit-class | Class "unmarkedFit" |
| unmarkedFitDS-class | Class "unmarkedFit" |
| unmarkedFitDSO-class | Class "unmarkedFit" |
| unmarkedFitGMM-class | Class "unmarkedFit" |
| unmarkedFitList-class | Class "unmarkedFitList" |
| unmarkedFitMMO-class | Class "unmarkedFit" |
| unmarkedFitMPois-class | Class "unmarkedFit" |
| unmarkedFitNmixTTD-class | Class "unmarkedFit" |
| unmarkedFitOccu-class | Class "unmarkedFit" |
| unmarkedFitOccuFP-class | Class "unmarkedFit" |
| unmarkedFitOccuMS-class | Class "unmarkedFit" |
| unmarkedFitOccuMulti-class | Class "unmarkedFit" |
| unmarkedFitOccuPEN-class | Class "unmarkedFit" |
| unmarkedFitOccuPEN_CV-class | Class "unmarkedFit" |
| unmarkedFitOccuTTD-class | Class "unmarkedFit" |
| unmarkedFitPCO-class | Class "unmarkedFit" |
| unmarkedFitPCount-class | Class "unmarkedFit" |
| unmarkedFrame | Create an unmarkedFrame, or one of its child classes. |
| unmarkedFrame-class | Class "unmarkedFrame" |
| unmarkedFrameDS | Organize data for the distance sampling model of Royle et al. (2004) fit by distsamp |
| unmarkedFrameDS-class | Class "unmarkedFrame" |
| unmarkedFrameDSO | Create an object of class unmarkedFrameDSO that contains data used by distsampOpen. |
| unmarkedFrameDSO-class | Class "unmarkedFrame" |
| unmarkedFrameGDS | Create an unmarkedMultFrame, unmarkedFrameGMM, unmarkedFrameGDS, or unmarkedFrameGPC object |
| unmarkedFrameGDS-class | Class "unmarkedFrame" |
| unmarkedFrameGMM | Create an unmarkedMultFrame, unmarkedFrameGMM, unmarkedFrameGDS, or unmarkedFrameGPC object |
| unmarkedFrameGMM-class | Class "unmarkedFrame" |
| unmarkedFrameGPC | Create an unmarkedMultFrame, unmarkedFrameGMM, unmarkedFrameGDS, or unmarkedFrameGPC object |
| unmarkedFrameGPC-class | Class "unmarkedFrame" |
| unmarkedFrameMMO | Create an object of class unmarkedFrameMMO that contains data used by multmixOpen. |
| unmarkedFrameMMO-class | Class "unmarkedFrame" |
| unmarkedFrameMPois | Organize data for the multinomial-Poisson mixture model of Royle (2004) fit by multinomPois |
| unmarkedFrameMPois-class | Class "unmarkedFrame" |
| unmarkedFrameOccu | Organize data for the single season occupancy models fit by occu and occuRN |
| unmarkedFrameOccu-class | Class "unmarkedFrame" |
| unmarkedFrameOccuFP | Organize data for the single season occupancy models fit by occuFP |
| unmarkedFrameOccuMS | Organize data for the multi-state occupancy model fit by occuMS |
| unmarkedFrameOccuMS-class | Class "unmarkedFrame" |
| unmarkedFrameOccuMulti | Organize data for the multispecies occupancy model fit by occuMulti |
| unmarkedFrameOccuMulti-class | Class "unmarkedFrame" |
| unmarkedFrameOccuTTD | Create an unmarkedFrameOccuTTD object for the time-to-detection model fit by occuTTD |
| unmarkedFrameOccuTTD-class | Class "unmarkedFrame" |
| unmarkedFramePCO | Create an object of class unmarkedFramePCO that contains data used by pcountOpen. |
| unmarkedFramePCO-class | Class "unmarkedFrame" |
| unmarkedFramePCount | Organize data for the N-mixture model fit by pcount |
| unmarkedFramePCount-class | Class "unmarkedFrame" |
| unmarkedModSel-class | Model selection results from an unmarkedFitList |
| unmarkedMultFrame | Create an unmarkedMultFrame, unmarkedFrameGMM, unmarkedFrameGDS, or unmarkedFrameGPC object |
| unmarkedMultFrame-class | Class "unmarkedFrame" |
| unmarkedPostSamples-class | Draw samples from the posterior predictive distribution |
| unmarkedRanef-class | Class '"unmarkedRanef"' |
| update-method | Class "unmarkedFit" |
| vcov-method | Methods for Function vcov in Package 'unmarked' |
| vcov-methods | Methods for Function vcov in Package 'unmarked' |
| vif | Compute Variance Inflation Factors for an unmarkedFit Object. |
| woodthrush | BBS Point Count and Occurrence Data from 2 Bird Species |
| woodthrush.bin | BBS Point Count and Occurrence Data from 2 Bird Species |
| yearlySiteCovs | Create an unmarkedMultFrame, unmarkedFrameGMM, unmarkedFrameGDS, or unmarkedFrameGPC object |
| yearlySiteCovs-method | Create an unmarkedMultFrame, unmarkedFrameGMM, unmarkedFrameGDS, or unmarkedFrameGPC object |
| yearlySiteCovs<- | Create an unmarkedMultFrame, unmarkedFrameGMM, unmarkedFrameGDS, or unmarkedFrameGPC object |
| yearlySiteCovs<--method | Create an unmarkedMultFrame, unmarkedFrameGMM, unmarkedFrameGDS, or unmarkedFrameGPC object |
| [-method | Methods for bracket extraction [ in Package 'unmarked' |
| [-method | Draw samples from the posterior predictive distribution |
| [-method | Class "unmarkedFrame" |
| [-methods | Methods for bracket extraction [ in Package 'unmarked' |