# Read, Plot and Analyse Output from the DEPONS Model

## Documentation for package ‘DEPONS2R’ version 1.2.8

- DESCRIPTION file.

## Help Pages

ais.to.DeponsShips | Convert ship tracks to DeponsShips object
aisdata | Position for three ships in the inner Danish waters
argosmetrics | Fine and Large-scale metrics of Argos data
as.data.frame-method | Convert DeponsDyn object to data frame
as.data.frame-method | Convert DeponsTrack to data frame
as.DeponsRaster | Convert a RasterLayer into a DeponsRaster
as.DeponsRaster-method | Convert a RasterLayer into a DeponsRaster
as.raster | Convert a DeponsRaster into a RasterLayer
as.raster-method | Convert a DeponsRaster into a RasterLayer
bathymetry | Bathymetry of the Kattegat area
bbox | Get bbox from Depons* object
bbox-method | Get bbox from Depons* object
calib_01 | Plot distribution of turning angles, step lengths and speed of tracked simulated porpoises.
calib_02 | Calculate calibration metrics of previously filtered tracks (fine-scale or large-scale)
check.DeponsShips | Check if ships move at unrealistic speeds or are outside the map boundary
coastline | Coastline of Northern Europe
crs | Get or set map projection in Depons* objects
crs-method | Get or set map projection in Depons* objects
crs<- | Get or set map projection in Depons* objects
crs<--method | Get or set map projection in Depons* objects
DEPONS2R | Package for analyzing DEPONS simulation output
DeponsBlockdyn-class | DeponsBlockdyn-class
DeponsDyn-class | DeponsDyn-class
DeponsRaster-class | DeponsRaster-class
DeponsShips-class | DeponsShips-class
DeponsTrack-class | DeponsTrack-class
dyn | Extract population dynamics from objects
dyn-method | Extract population dynamics from objects
get.latest.sim | Get name of newest file
get.simtime | Get simulation date
interpolate.ais.data | Interpolate AIS data
interpolate.maps | Interpolate missing entries in a series of maps
landscape | Get or set the landscape name
landscape-method | Get or set the landscape name
landscape<- | Get or set the landscape name
landscape<--method | Get or set the landscape name
make.blocksraster | Makes new file with blocks
make.blocksraster-method | Makes new file with blocks
make.clip.poly | Make clipping polygon from bbox
make.clip.poly-method | Make clipping polygon from bbox
make.construction.traffic | Generate artificial AIS data representing ship traffic during wind farm construction
make.DeponsDyn | Make DeponsDyn object from data stored in data frame
make.stationary.ships | Identify and parameterize stationary active ships in a DeponsShips object
make.windfarms | Make wind farm construction scenario
plot-method | Plot a DeponsBlockdyn object
plot-method | Plot a DeponsDyn object
plot-method | Plot a DeponsRaster object
plot-method | Plot a DeponsShips object
plot-method | Plot a DeponsTrack object
plot.DeponsBlockdyn | Plot a DeponsBlockdyn object
plot.DeponsDyn | Plot a DeponsDyn object
plot.DeponsRaster | Plot a DeponsRaster object
plot.DeponsShips | Plot a DeponsShips object
plot.DeponsTrack | Plot a DeponsTrack object
plot_calib02 | Plotting of simulated fine or large-scale metrics against argos data
porpoisebdyn | Simulated porpoise population dynamics
porpoisedyn | Simulated porpoise population dynamics
porpoisetrack | Simulated porpoise track
read.DeponsBlockdyn | Reading simulated population count for blocks
read.DeponsDyn | Reading DEPONS simulation output
read.DeponsDynBatch | Read and merges DEPONS Batchmap and Statistics Files
read.DeponsParam | Read simulation parameters
read.DeponsRaster | Reading DEPONS raster files
read.DeponsShips | Read DEPONS ship files
read.DeponsTrack | Reading DEPONS track files
read.DeponsTrackBatch | Read and Process DEPONS Batchmap and Statistics Files
routes | Get or define routes in DeponsShips objects
routes-method | Get or define routes in DeponsShips objects
routes<- | Get or define routes in DeponsShips objects
routes<--method | Get or define routes in DeponsShips objects
set.ship.type | Convert AIS vessel type identifiers into the ship types recognized by DEPONS
shipdata | Ships on example routes through the Kattegat
ships | Get or define ships in DeponsShips objects
ships-method | Get or define ships in DeponsShips objects
ships<- | Get or define ships in DeponsShips objects
ships<--method | Get or define ships in DeponsShips objects
startday | Get or set start date for simulation
startday-method | Get or set start date for simulation
startday<- | Get or set start date for simulation
startday<--method | Get or set start date for simulation
summary | Summary
summary-method | Summary
Summary-methods | Summary
tick.to.time | Convert tick number to time object
time.to.tick | Convert date to tick number
title | Get or set the title of Depons* objects
title-method | Get or set the title of Depons* objects
title<- | Get or set the title of Depons* objects
title<--method | Get or set the title of Depons* objects
write-method | Write DEPONS ship files
write.DeponsShips | Write DEPONS ship files