| anom | Health anomaly between individual health and population... |
| anomSP | Health anomaly between individual health and population... |
| calcAnom | Return the differences in health between individuals and pop... |
| calckdpaSurvdat | Prepare the data needed to calculate survivorship for... |
| calcKMCurves | Return lists to be used in plotting Kaplan-Meier survival... |
| calcKMCurvesSevGen | Return lists to be used in plotting Kaplan-Meier survival... |
| calcKMUncertainty | Data frame of 95% uncertainty quantiles for survivorship. |
| calcpresdSurvdat | Prepare the data needed to calculate survivorship for... |
| calfTable | Table describing all of the calving events in the right whale... |
| cleanMerge | Clean up the entanglement time data for geary-carrying... |
| dcut | Scalar noting when the sightings data are complete through |
| deadTable | Data frame of known deaths of individual right whales |
| deathyr | Estimated death months of individual animals |
| entvec | Entanglement class definitions |
| estStartDates | Information about estimated start data of entanglement events |
| etime | Information about gear carrying time on entangled right... |
| firstSight | Vector denoting the first month (in integer form) of animal... |
| gender | Gender of each individual right whale |
| getDeaths | Matrix of imputed death times |
| healthmean | Estimated health of individual animals |
| healthmeanSP | Estimated health of individual animals for slope plot |
| healthsd | Estimated standard deviation health of individual animals |
| ID | ID vector of EGNo's for all individual right whales in the... |
| lastSight | Vector denoting the last month (in integer form) of animal... |
| makeEvents | Return 'events' data frame of last entanglement event |
| makeTangle | Create valid and usable variables describing the start/stop... |
| makeYearmon | to make a year format from monYr for the right whale plotting |
| myName | Month-year vector used to mark time in the model |
| ng | Number of Gibbs steps used in the input rda file |
| nt | Length of the modelling |
| plotBoxplotHealth | Plot boxplots of health during entanglement and compare to... |
| plotHealthThreshold | Make barplot of number of months below health threshold |
| plotSlopeHealth | Return the slope health plot as a 'gridExtra' grob |
| plotSurv | Plot of Kaplan-Meier survival curve for all entangled whales. |
| plotSurvGenderSeverity | Plot of Kaplan-Meier survival curve for all entangled whales. |
| pophealth | Population level health of right whales |
| prepBoxplotHealthData | Prepare data for making the boxplots of health during... |
| prepHealthThresholdPlotData | Assemble the data for plotting the barplot of % below... |
| prephThreshDataRepro | Assemble health of impacted reproductively active females |
| prephThreshDataUnImp | Prepare data frame of health in unimpacted females for %... |
| prepSlopeHealthData | Prepare the individual line data for slope health plot |
| prepSlopeHealthDataAnnotation | Prepare the data for annotating the slope health plot |
| prepSlopeHealthDataBarplot | Prepare the data for barplot portion of the slope health plot |
| prepSlopeHealthDataMedian | Prepare the median line data for slope health plot |
| presDeadsurvdat | Data frame of survival information for presumed dead animals |
| returnhealthAnom | Return the right whale population level health Anomaly as a... |
| returnHealth_by_calving_interval | Return the health data for calving females during intervals |
| returnPophealth | Return the right whale population level health as a data... |
| returnSurvdf | Return survival data frame for testing differences in the... |
| returnUnimpactedHealth | Return the health data for unimpacted whales (reproductively... |
| tangleAll | Information about entanglement events - raw |
| tangled | tangled: a package for analysis and plotting of effects of... |
| tangleOut | Information about entanglement events - filtered and modified... |
| tangNonRepro | Information about entanglement events of non-reproductively... |
| tangRepro | Information about entanglement events of reproductively... |
| winDiagram | Create a diagram showing how we extract health anomaly... |
