| aicc | Generic S3 function for summarizing AICc |
| aicc.cpm | Extract AIC and AICc for a carcass persistence model |
| aicc.cpmSet | Create the AICc tables for a set of carcass persistence... |
| aicc.cpmSetSize | Create the AICc tables for a list of sets of searcher... |
| aicc.pkm | extract AICc value from pkm object |
| aicc.pkmSet | Create the AICc tables for a set of searcher efficiency... |
| aicc.pkmSetSize | Create the AICc tables for a list of sets of searcher... |
| aicc.pkmSize | Create the AICc tables for a list of sets of searcher... |
| app_content | GenEst Information |
| app_download_functions | GenEst app download funtions |
| app_msg_functions | GenEst App Messages |
| app_output_utilities | app utilities for formatting text, tables, figs, etc. for... |
| app_panels | app panel utility functions |
| app_server | The GenEst server definition function |
| app_ui | Create the GenEst User Interface HTML |
| app_ui_utilities | HTML parameters |
| app_utilities | app utilities |
| app_widgets | Create and manage widgets for data input, function execution,... |
| averageSS | Tabulate an average search schedule from a multi-unit SS data... |
| calcg | Calculate detection probability for given SE and CP... |
| calcRate | Estimate the number of fatalities in each search interval... |
| calcSplits | Estimate the number of fatalities by up to two splitting... |
| calcTsplit | Estimate the number of fatalities by time interval |
| checkComponents | Check for model components |
| checkDate | Checks whether a vector of data can be interpreted as dates |
| checkSpecificModelCP | Error check a specific model selection for a CP plot |
| checkSpecificModelSE | Error check a specific model selection for an SE plot |
| CO_DWP | Associate CO carcasses with appropriate DWP values (by unit... |
| combinePreds | Combine predictors |
| combinePredsAcrossModels | Combine predictors across models |
| countCarcs | Count the minimum number of carcasses in the cells |
| CPcols | Produce a named vector of standard CP plot colors |
| CPdistOptions | Produce the options for the distributions in the CP model |
| cpLogLik | Calculate the negative log-likelihood of a carcass... |
| cpm | Fit cp carcass persistence models |
| cpmCPCellPlot | Plot cell-specific decay curve for carcass persistence |
| cpmFail | Check if a CP model is well-fit |
| cpmSetFail | Check if cpm models fail |
| cpmSetFailRemove | Remove failed cpm models from a 'cpmSet' object |
| cpmSetSizeFail | Check if all of the cpm models fail |
| cpmSetSizeFailRemove | Remove failed cpm models from a 'cpmSetSize' object |
| cpmSetSpecCPCellPlot | Plot cell-specific decay curve for carcass persistence |
| dateCols | Select the date columns from a data table |
| dateToDay | Calculate day of study from calendar date |
| defineUnitCol | Auto-parsing to find the name of the unit column ('unitCol') |
| desc | Descriptive statistics for a fitted CP model |
| dlModTabSE | Create the download version of the Searcher Efficiency model... |
| DWPCols | Select the DWP-ok columns from a data table |
| dwpm | Fit density-weighted proportion (DWP) models. |
| estg | Estimate all carcass-level detection rates and arrival... |
| estgGeneric | Estimate generic g |
| estgGenericSize | Estimate generic detection probability for multiple carcass... |
| estM | Estimate mortality |
| expandModelSetCP | Expand a CP model set for plotting |
| GenEst | Generalized estimation of mortality |
| logit | Compute the logit or anti-logit |
| ltranspose | Transpose a list of arrays |
| mock | A mock example data set |
| model_utility_functions | model utility functions (not exported) |
| obsCols_fta | Select the columns from a data table that could be CP First... |
| obsCols_ltp | Select the columns from a data table that could be CP Last... |
| obsCols_SE | Select the columns from a data table that could be SE... |
| pkLogLik | Calculate the negative log-likelihood of a searcher... |
| pkm | Fit pk searcher efficiency models. |
| pkmFail | Check if a pk model is well-fit |
| pkmParamPlot | Plot parameter box plots for each cell for either p or k |
| pkmSECellPlot | Plot cell-specific decay curve for searcher efficiency |
| pkmSetAllFail | Check if all of the pkm models fail within a given set |
| pkmSetFail | Check if pkm models fail |
| pkmSetFailRemove | Remove failed pkm models from a 'pkmSet' object |
| pkmSetSizeFail | Check if all of the pkm models fail |
| pkmSetSizeFailRemove | Remove failed pkm models from a 'pkmSetSize' object |
| pkmSetSpecParamPlot | p or k box plots for an SE model set |
| pkmSetSpecSECellPlot | Plot cell-specific decay curve for searcher efficiency for a... |
| pllogis | The CDF of the loglogistic distribution |
| plotCPCells | Plot the cellwise results of a single model in a set of CP... |
| plotCPFigure | Plot results of a single CP model in a set |
| plotCPHeader | The CP plot header |
| plot.cpm | Plot results of a single CP model |
| plot.cpmSet | Plot results of a set of CP models |
| plot.estM | Plot total mortality estimation |
| plot.gGeneric | Plot results of a single generic ghat estimation |
| plot.gGenericSize | Plot results of a set of size-based generic ghat estimations |
| plot.pkm | Plot results of a single pk model |
| plot.pkmSet | Plot results of a set of SE models |
| plotSEBoxPlots | p and k box plots for an SE model set |
| plotSEBoxTemplate | template box plot |
| plotSECells | Plot the cellwise results of a single model in a set of SE... |
| plotSEFigure | Plot results of a single SE model in a set |
| plotSEHeader | The SE plot header |
| plot.splitFull | Plot summary statistics for splits of mortality estimates |
| plot.splitSummary | Plot summary statistics for splits of mortality estimates |
| ppersist | Calculate the probability of persistence to detection |
| predsCols | Select the predictor-ok columns from a data table |
| prepPredictors | Prepare predictors based on inputs |
| prepSS | Create search schedule data into an prepSS object for... |
| prettyModTabCP | Create the pretty version of the Carcass Persistence model... |
| prettyModTabSE | Create the pretty versions of model and summary tables |
| prettySplitTab | Create the pretty version of the split summary table |
| print.cpm | Print a 'cpm' model object |
| print.pkm | Print a 'pkm' model object |
| qpk | Quantiles of marginal distributions of \hat{p} and \hat{k} |
| rcp | Simulate parameters from a fitted cp model |
| rdwp | Simulate parameters from a fitted dwp model |
| readCSV | Read in csv files in either format |
| refMod | Return the model with the greatest log-likelihood |
| removeCols | Remove selected columns from column names |
| rpk | Simulate parameters from a fitted pk model |
| runGenEst | Launch the GenEst Application |
| SEboxes | Produce boxplots 'p' and/or 'k' for all cells for reference... |
| SEcols | Produce a named vectory with standard SE plot colors |
| SEfig | Plot results of a single SE model in a set |
| SEpanel | Produce a single panel in an SE summary/diagnostic plot |
| SEsi | Calculate decayed searcher efficiency |
| SEsi0 | Calculate decayed searcher efficiency for a single pk |
| SEsi_left | Calculate conditional probability of observation at a search |
| SEsi_right | Calculate conditional probability of observation after a... |
| simpleMplot | Plot a total mortality estimation for a simple situation |
| sizeCols | Select the potential carcass class columns from a data table |
| solar_powerTower | Power Tower Example Dataset |
| solar_PV | Photovoltaic Example Dataset |
| solar_trough | Trough-based solar thermal power simulated example |
| summary.estM | Summarize total mortality estimation |
| summary.gGeneric | Summarize the gGeneric list to a simple table |
| summary.gGenericSize | Summarize the gGenericSize list to a list of simple tables |
| summary.splitFull | Summarize results of mortality estimate splits |
| tidyModelSetCP | Tidy a CP model set |
| tidyModelSetSE | Tidy an SE model set |
| transposeSplits | Transpose a 'splitFull' array (preserving attributes) |
| trimSetSize | Trim a Model-Set-Size Complex to a Single Model Per Size |
| update_input | Update the inputs when an event occurs |
| update_output | Update the outputs when an event occurs |
| update_rv | Update the reactive value list when an event occurs |
| wind_cleared | Wind cleared plot (60m) Search Example |
| wind_RP | Wind Road and Pad (120m) Example |
| wind_RPbat | Wind Bat-Only Road and Pad (120m) Example |
