Package: voluModel 0.2.2
voluModel: Modeling Species Distributions in Three Dimensions
Facilitates modeling species' ecological niches and geographic distributions based on occurrences and environments that have a vertical as well as horizontal component, and projecting models into three-dimensional geographic space. Working in three dimensions is useful in an aquatic context when the organisms one wishes to model can be found across a wide range of depths in the water column. The package also contains functions to automatically generate marine training model training regions using machine learning, and interpolate and smooth patchily sampled environmental rasters using thin plate splines. Davis Rabosky AR, Cox CL, Rabosky DL, Title PO, Holmes IA, Feldman A, McGuire JA (2016) <doi:10.1038/ncomms11484>. Nychka D, Furrer R, Paige J, Sain S (2021) <doi:10.5065/D6W957CT>. Pateiro-Lopez B, Rodriguez-Casal A (2022) <https://CRAN.R-project.org/package=alphahull>.
Authors:
voluModel_0.2.2.tar.gz
voluModel_0.2.2.zip(r-4.5)voluModel_0.2.2.zip(r-4.4)voluModel_0.2.2.zip(r-4.3)
voluModel_0.2.2.tgz(r-4.4-any)voluModel_0.2.2.tgz(r-4.3-any)
voluModel_0.2.2.tar.gz(r-4.5-noble)voluModel_0.2.2.tar.gz(r-4.4-noble)
voluModel_0.2.2.tgz(r-4.4-emscripten)voluModel_0.2.2.tgz(r-4.3-emscripten)
voluModel.pdf |voluModel.html✨
voluModel/json (API)
NEWS
# Install 'voluModel' in R: |
install.packages('voluModel', repos = c('https://hannahlowens.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/hannahlowens/volumodel/issues
Last updated 1 months agofrom:3fa65b3ef3. Checks:OK: 7. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Nov 16 2024 |
R-4.5-win | OK | Nov 16 2024 |
R-4.5-linux | OK | Nov 16 2024 |
R-4.4-win | OK | Nov 16 2024 |
R-4.4-mac | OK | Nov 16 2024 |
R-4.3-win | OK | Nov 16 2024 |
R-4.3-mac | OK | Nov 16 2024 |
Exports:areColorsblendColorbottomRastercenterPointRasterTemplatecolumnParsediversityStackdownsampleinterpolateRastermarineBackgroundMESS3DmSampling2DmSampling3DoneRasterPlotplotLayerspointCompMappointMaprasterCompsmoothRastertestIntersectiontransectPlottranspColorverticalSamplexyzSample
Dependencies:alphahullaskpassbackportscachemcheckmateclassclassIntclicolorspacecommonmarkcpp11curldata.tableDBIdeldirdigestdotCall64dplyre1071fansifarverfastmapfieldsFormulaformula.toolsgenericsggplot2ggtextgluegridtextgtablehttrinterpisobandjpegjsonliteKernSmoothlabelinglatticelifecyclelubridatemagrittrmapsmarkdownMASSMatrixmemoisemetRmgcvmimemodEvAmunsellnlmeopenssloperator.toolspbapplypillarpkgconfigplyrpngpolyclipproxypurrrR.methodsS3R.ooR.utilsR6rangeBuilderRColorBrewerRcppRcppEigenrlangrnaturalearths2scalessfsgeostatspspamspatstat.dataspatstat.geomspatstat.randomspatstat.univarspatstat.utilssplancsstringistringrsysterratibbletidyselecttimechangeunitsutf8vctrsviridisLitewithrwkxfunxml2
Introduction to voluModel
Rendered froma_Introduction.Rmd
usingknitr::rmarkdown
on Nov 16 2024.Last update: 2024-08-20
Started: 2022-02-14
Processing Raster Data
Rendered fromb_RasterProcessing.Rmd
usingknitr::rmarkdown
on Nov 16 2024.Last update: 2023-04-06
Started: 2022-02-14
Environmental Data Sampling
Rendered fromc_DataSampling.Rmd
usingknitr::rmarkdown
on Nov 16 2024.Last update: 2024-08-20
Started: 2022-02-14
Visualization Tools
Rendered fromd_Visualization.Rmd
usingknitr::rmarkdown
on Nov 16 2024.Last update: 2024-08-20
Started: 2022-02-14
3D Niche Modeling with the GLM Algorithm
Rendered frome_GLMWorkflow.Rmd
usingknitr::rmarkdown
on Nov 16 2024.Last update: 2024-08-20
Started: 2022-02-14
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Bottom raster generation | bottomRaster |
Center Point Raster Template | centerPointRasterTemplate |
Diversity stack | diversityStack |
Occurrence downsampling | downsample |
Interpolate patchily sampled rasters | interpolateRaster |
Marine background shapefile generation | marineBackground |
Calculate MESS | MESS3D |
2D background sampling | mSampling2D |
3D background sampling | mSampling3D |
Single raster plot | oneRasterPlot |
Plotting 3D model in 2D | plotLayers |
Comparative point mapping | pointCompMap |
Point mapping | pointMap |
Comparative raster mapping | rasterComp |
Smooth rasters | smoothRaster |
Plot vertical sample | transectPlot |
Sampling from a 'SpatRaster' vector using 3D coordinates | xyzSample |