R: Dive Analysis and Calibration

# Dive Analysis and Calibration

## Documentation for package ‘diveMove’ version 1.5.2

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

A B C D E G L O P R S T U misc

diveMove-package | Dive Analysis and Calibration

## -- A --

as.data.frame-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
as.TDRspeed | Coerce, Extractor, and Replacement methods for class "TDR" objects
as.TDRspeed-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
austFilter | Filter satellite locations

## -- B --

bec2 | Methods for Plotting and Extracting the Bout Ending Criterion
bec2-method | Methods for Plotting and Extracting the Bout Ending Criterion
bec3 | Methods for Plotting and Extracting the Bout Ending Criterion
bec3-method | Methods for Plotting and Extracting the Bout Ending Criterion
bout-methods | Methods for Plotting and Extracting the Bout Ending Criterion
boutfreqs | Fit a Broken Stick Model on Log Frequency Data for identification of bouts of behaviour
boutinit | Fit a Broken Stick Model on Log Frequency Data for identification of bouts of behaviour
bouts.mle | Maximum Likelihood Model of mixture of 2 Poisson Processes
bouts2.LL | Maximum Likelihood Model of mixture of 2 Poisson Processes
bouts2.ll | Maximum Likelihood Model of mixture of 2 Poisson Processes
bouts2.mleBEC | Maximum Likelihood Model of mixture of 2 Poisson Processes
bouts2.mleFUN | Maximum Likelihood Model of mixture of 2 Poisson Processes
bouts2.nls | Fit mixture of 2 Poisson Processes to Log Frequency data
bouts2.nlsBEC | Fit mixture of 2 Poisson Processes to Log Frequency data
bouts2.nlsFUN | Fit mixture of 2 Poisson Processes to Log Frequency data
bouts3.nls | Fit mixture of 3 Poisson Processes to Log Frequency data
bouts3.nlsBEC | Fit mixture of 3 Poisson Processes to Log Frequency data
bouts3.nlsFUN | Fit mixture of 3 Poisson Processes to Log Frequency data

## -- C --

calibrateDepth | Calibrate Depth and Generate a "TDRcalibrate" object
calibrateSpeed | Calibrate and build a "TDRcalibrate" object
ccData<- | Coerce, Extractor, and Replacement methods for class "TDR" objects
ccData<--method | Coerce, Extractor, and Replacement methods for class "TDR" objects
coerce-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
createTDR | Read comma-delimited file with "TDR" data

## -- D --

depth<- | Coerce, Extractor, and Replacement methods for class "TDR" objects
depth<--method | Coerce, Extractor, and Replacement methods for class "TDR" objects
distSpeed | Calculate distance and speed between locations
diveModel | Class "diveModel" for representing a model for identifying dive phases
diveModel-class | Class "diveModel" for representing a model for identifying dive phases
diveMove | Dive Analysis and Calibration
dives | Sample of TDR data from a fur seal
diveStats | Per-dive statistics
divesTDR | Sample of TDR data from a fur seal
divesTDRzoc | Sample of TDR data from a fur seal

## -- E --

extractDive | Extract Dives from "TDR" or "TDRcalibrate" Objects
extractDive-method | Extract Dives from "TDR" or "TDRcalibrate" Objects
extractDive-methods | Extract Dives from "TDR" or "TDRcalibrate" Objects

## -- G --

getCCData | Coerce, Extractor, and Replacement methods for class "TDR" objects
getCCData-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
getDAct | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getDAct-method | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getDepth | Coerce, Extractor, and Replacement methods for class "TDR" objects
getDepth-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
getDiveDeriv | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getDiveDeriv-method | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getDiveModel | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getDiveModel-method | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getDPhaseLab | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getDPhaseLab-method | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getDtime | Coerce, Extractor, and Replacement methods for class "TDR" objects
getDtime-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
getFileName | Coerce, Extractor, and Replacement methods for class "TDR" objects
getFileName-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
getGAct | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getGAct-method | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getSpeed | Coerce, Extractor, and Replacement methods for class "TDR" objects
getSpeed-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
getSpeedCoef | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getSpeedCoef-method | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getTDR | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getTDR-method | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
getTime | Coerce, Extractor, and Replacement methods for class "TDR" objects
getTime-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
grpSpeedFilter | Filter satellite locations

## -- L --

labelBouts | Fit a Broken Stick Model on Log Frequency Data for identification of bouts of behaviour
logit | Fit a Broken Stick Model on Log Frequency Data for identification of bouts of behaviour

## -- O --

oneDiveStats | Per-dive statistics

## -- P --

plotBouts | Methods for Plotting and Extracting the Bout Ending Criterion
plotBouts-method | Methods for Plotting and Extracting the Bout Ending Criterion
plotBouts2.cdf | Maximum Likelihood Model of mixture of 2 Poisson Processes
plotBouts2.mle | Maximum Likelihood Model of mixture of 2 Poisson Processes
plotBouts2.nls | Fit mixture of 2 Poisson Processes to Log Frequency data
plotBouts3.nls | Fit mixture of 3 Poisson Processes to Log Frequency data
plotDiveModel | Methods for plotting models of dive phases
plotDiveModel-method | Methods for plotting models of dive phases
plotDiveModel-methods | Methods for plotting models of dive phases
plotTDR | Methods for plotting objects of class "TDR" and "TDRcalibrate"
plotTDR-method | Methods for plotting objects of class "TDR" and "TDRcalibrate"
plotTDR-methods | Methods for plotting objects of class "TDR" and "TDRcalibrate"
plotZOC | Methods for visually assessing results of ZOC procedure
plotZOC-method | Methods for visually assessing results of ZOC procedure
plotZOC-methods | Methods for visually assessing results of ZOC procedure

## -- R --

readLocs | Read comma-delimited file with location data
readTDR | Read comma-delimited file with "TDR" data
rmsDistFilter | Filter satellite locations
rqPlot | Plot of quantile regression for speed calibrations
runquantile-internal | Quantile of Moving Window

## -- S --

sealLocs | Ringed and Gray Seal ARGOS Satellite Location Data
show-method | Coerce, Extractor, and Replacement methods for class "TDR" objects
show-method | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
speed<- | Coerce, Extractor, and Replacement methods for class "TDR" objects
speed<--method | Coerce, Extractor, and Replacement methods for class "TDR" objects
stampDive | Per-dive statistics

## -- T --

TDR | Classes "TDR" and "TDRspeed" for representing TDR information
TDR-accessors | Coerce, Extractor, and Replacement methods for class "TDR" objects
TDR-class | Classes "TDR" and "TDRspeed" for representing TDR information
TDR-methods | Coerce, Extractor, and Replacement methods for class "TDR" objects
TDRcalibrate | Class "TDRcalibrate" for dive analysis
TDRcalibrate-accessors | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
TDRcalibrate-class | Class "TDRcalibrate" for dive analysis
TDRcalibrate-methods | Methods to Show and Extract Basic Information from "TDRcalibrate" Objects
TDRspeed | Classes "TDR" and "TDRspeed" for representing TDR information
TDRspeed-class | Classes "TDR" and "TDRspeed" for representing TDR information
timeBudget | Describe the Time Budget of Major Activities from "TDRcalibrate" object.
timeBudget-method | Describe the Time Budget of Major Activities from "TDRcalibrate" object.

## -- U --

unLogit | Fit a Broken Stick Model on Log Frequency Data for identification of bouts of behaviour

## -- misc --

.runquantile | Quantile of Moving Window
[-method | Coerce, Extractor, and Replacement methods for class "TDR" objects