Package: mkde 0.3

mkde: 2D and 3D Movement-Based Kernel Density Estimates (MKDEs)

Provides functions to compute and visualize movement-based kernel density estimates (MKDEs) for animal utilization distributions in 2 or 3 spatial dimensions.

Authors:Jeff A. Tracey, James Sheppard, Jun Zhu, Robert Sinkovts, Amit Chourasia, Glenn Lockwood, Matthew Wang, and Robert N. Fisher

mkde_0.3.tar.gz
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mkde.pdf |mkde.html✨
mkde/json (API)

# Install 'mkde' in R:
install.packages('mkde', repos = c('https://sinkovit.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:
  • condor - California condor locations
  • dugong - Dugong locations
  • panda - Giant panda locations

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.60 score 40 scripts 226 downloads 1 mentions 29 exports 17 dependencies

Last updated 5 months agofrom:cfdc12fe01. Checks:OK: 9. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 19 2024
R-4.5-win-x86_64OKNov 19 2024
R-4.5-linux-x86_64OKNov 19 2024
R-4.4-win-x86_64OKNov 19 2024
R-4.4-mac-x86_64OKNov 19 2024
R-4.4-mac-aarch64OKNov 19 2024
R-4.3-win-x86_64OKNov 19 2024
R-4.3-mac-x86_64OKNov 19 2024
R-4.3-mac-aarch64OKNov 19 2024

Exports:computeAreaRastercomputeContourValuescomputeSizeMKDEdeselectLocationsOutsideBoundsdeselectNonMovementStepsestVarMKDEinitializeAreaRasterinitializeDensityinitializeMKDE2DinitializeMKDE3DinitializeMovementDatamkde2Dgridmkde2Dinteractionmkde3Dgridmkde3DinteractionmkdeToRasterplotMKDEreaddem_examplesetMaximumZfromConstantsetMaximumZfromRastersetMinimumZfromConstantsetMinimumZfromRasterwriteInterpolatedPathVTKwriteObservedLocationVTKwriteRasterToVTKwriteRasterToXDMFwriteToGRASSwriteToVTKwriteToXDMF

Dependencies:abindclassclassIntDBIe1071KernSmoothmagrittrMASSproxyRcpprlangs2sfstarsterraunitswk

Readme and manuals

Help Manual

Help pageTopics
Movement-based kernel density estimates (MKDEs) in 2 or 3 spatial dimensions.mkde-package mkde
Calculate cell areas from elevation raster.computeAreaRaster
Find thresholds for contour intervalscomputeContourValues
Compute the area or volume of an MKDE.computeSizeMKDE
California condor locationscondor
Flag 3D locations with out-of-bounds z-coordinatesdeselectLocationsOutsideBounds
Flag non-movements so they are excluded from MKDE estimationdeselectNonMovementSteps
Dugong locationsdugong
Estimate move variances for 3D MKDE.estVarMKDE
Initialize an area raster for a 2.5D MKDE.initializeAreaRaster
Calculate raster of density values for MKDE.initializeDensity
Set up a 2D MKDE object.initializeMKDE2D
Set up a 3D MKDE object.initializeMKDE3D
Initialize a movement data listinitializeMovementData
Movement-based kernel density estimate (MKDE) in 2D using Rcppmkde2Dgrid
Probability of 2D spatial-temporal interaction.mkde2Dinteraction
Movement-based kernel density estimate (MKDE) in 3D using Rcppmkde3Dgrid
Probability of 3D spatial-temporal interaction.mkde3Dinteraction
MKDE to RasterLayer or RasterStackmkdeToRaster
Giant panda locationspanda
Make an image plot of an MKDE.plotMKDE
Read digital elevation model (DEM) data setsreaddem_example
Initialize maximum allowable z-axis coordinates to a constant value.setMaximumZfromConstant
Initialize maximum z-axis value from a rastersetMaximumZfromRaster
Set minimum z-axis value to a constant.setMinimumZfromConstant
Set minimum z-axis values from a rastersetMinimumZfromRaster
Write path to VTK.writeInterpolatedPathVTK
Write observed locations to VTK.writeObservedLocationVTK
Write a 2D raster to XDMF XML wrapper and binary data file.writeRasterToVTK
Write a 2D raster to XDMF XML wrapper and binary data file.writeRasterToXDMF
Write MKDE to a GRASS GIS 3D ASCII raster file.writeToGRASS
Write MKDE to an ASCII Visualization Tool Kit (VTK) structured grid file.writeToVTK
Write 3D MKDE to XDMF XML wrapper and binary data file.writeToXDMF