Package: dismo 1.3-14
dismo: Species Distribution Modeling
Methods for species distribution modeling, that is, predicting the environmental similarity of any site to that of the locations of known occurrences of a species.
Authors:
dismo_1.3-14.tar.gz
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dismo.pdf |dismo.html✨
dismo/json (API)
# Install 'dismo' in R: |
install.packages('dismo', repos = c('https://rspatial.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/rspatial/dismo/issues
- Anguilla_grids - Anguilla australis distribution data
- Anguilla_test - Anguilla australis distribution data
- Anguilla_train - Anguilla australis distribution data
- ECOcrops - Ecocrop model
- acaule - Solanum acaule data
Last updated 12 months agofrom:d4e3fd8c61. Checks:OK: 1 NOTE: 8. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Sep 04 2024 |
R-4.5-win-x86_64 | NOTE | Sep 04 2024 |
R-4.5-linux-x86_64 | NOTE | Sep 04 2024 |
R-4.4-win-x86_64 | NOTE | Sep 04 2024 |
R-4.4-mac-x86_64 | NOTE | Sep 04 2024 |
R-4.4-mac-aarch64 | NOTE | Sep 04 2024 |
R-4.3-win-x86_64 | NOTE | Sep 04 2024 |
R-4.3-mac-x86_64 | NOTE | Sep 04 2024 |
R-4.3-mac-aarch64 | NOTE | Sep 04 2024 |
Exports:bioclimbiovarscalc.deviancecircleHullcirclesconvHulldcEvaluatedomainecocropecolimevaluateevaluateROCRgbifgbm.fixedgbm.holdoutgbm.interactionsgbm.perspecgbm.plotgbm.plot.fitsgbm.simplifygbm.stepgeocodegeoDistgeoIDWgetCropgmapgridSamplekfoldmahalmaxentMercatormessnicheEquivalencynicheOverlapnullRandomplotpointspointValuespredictprepareDatapwdSamplerandomPointsrectHullresponsessbthresholdvoronoivoronoiHull
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Species distribution modeling | dismo-package dismo |
Solanum acaule data | acaule |
Anguilla australis distribution data | Anguilla_grids Anguilla_test Anguilla_train |
Bioclim | bioclim bioclim,data.frame,missing-method bioclim,matrix,missing-method bioclim,Raster,data.frame-method bioclim,Raster,matrix-method bioclim,Raster,SpatialPoints-method bioclim,SpatialGridDataFrame,matrix-method bioclim,SpatialGridDataFrame,SpatialPoints-method Bioclim-class |
bioclimatic variables | biovars biovars,matrix,matrix,matrix-method biovars,Raster,Raster,Raster-method biovars,vector,vector,vector-method |
Box plot of model evaluation data | boxplot,ModelEvaluation-method |
Calculate deviance | calc.deviance |
Circle hull model | circleHull circleHull,data.frame-method circleHull,matrix-method circleHull,SpatialPoints-method CircleHull-class |
Circles range | circles circles,data.frame-method circles,matrix-method circles,SpatialPoints-method CirclesRange-class |
Convex hull model | ConvexHull-class convHull convHull,data.frame-method convHull,matrix-method convHull,SpatialPoints-method |
Evaluate by distance class | dcEvaluate |
density | density density,DistModel-method density,ModelEvaluation-method |
Class "DistModel" | DistModel-class |
Domain | domain domain,data.frame,missing-method domain,matrix,missing-method domain,Raster,data.frame-method domain,Raster,matrix-method domain,Raster,SpatialPoints-method Domain-class |
Ecocrop model | ecocrop ECOCROP-class ECOCROPcrop-class ECOcrops getCrop plot,ECOCROP,missing-method plot,ECOCROPcrop,missing-method |
Ecolim model | ecolim ecolim,matrix,matrix-method EcoLim-class plot,EcoLim,ANY-method predict,EcoLim-method |
Model evaluation | evaluate |
Model testing with the ROCR package | evaluateROCR |
Plot model evaluation data | plot,ModelEvaluation,character-method |
Data from GBIF | gbif |
gbm fixed | gbm.fixed |
gbm holdout | gbm.holdout |
gbm interactions | gbm.interactions |
gbm perspective plot | gbm.perspec |
gbm plot | gbm.plot |
gbm plot fitted values | gbm.plot.fits |
gbm simplify | gbm.simplify |
gbm step | gbm.step |
Georeferencing with Google | geocode |
Geographic distance model | geoDist geoDist,data.frame-method geoDist,matrix-method geoDist,SpatialPoints-method GeographicDistance-class |
Get a Google map | gmap Mercator |
Stratified regular sample on a grid | gridSample |
Inverse-distance weighted model | geoIDW geoIDW,data.frame,data.frame-method geoIDW,matrix,matrix-method geoIDW,SpatialPoints,SpatialPoints-method InvDistWeightModel-class |
k-fold partitioning | kfold |
Mahalanobis model | mahal mahal,data.frame,missing-method mahal,matrix,missing-method mahal,Raster,data.frame-method mahal,Raster,matrix-method mahal,Raster,SpatialPoints-method Mahalanobis-class |
Maxent | maxent maxent,data.frame,vector-method maxent,missing,missing-method maxent,Raster,ANY-method maxent,SpatialGridDataFrame,ANY-method MaxEnt-class MaxEntReplicates-class |
Multivariate environmental similarity surfaces (MESS) | mess |
Class "ModelEvaluation" | ModelEvaluation-class |
Niche equivalency | nicheEquivalency |
Niche overlap | nicheOverlap |
Pair plots | pairs pairs,DistModel-method |
Plot predictor values | plot,Bioclim,missing-method plot,CircleHull,missing-method plot,CirclesRange,missing-method plot,ConvexHull,missing-method plot,DistModel,numeric-method plot,MaxEnt,missing-method plot,RectangularHull,missing-method plot,VoronoiHull,missing-method points,DistModel-method |
point values | pointValues |
Distribution model predictions | predict predict,Bioclim-method predict,CircleHull-method predict,CirclesRange-method predict,ConvexHull-method predict,Domain-method predict,GeographicDistance-method predict,InvDistWeightModel-method predict,Mahalanobis-method predict,MaxEnt-method predict,MaxEntReplicates-method predict,RectangularHull-method predict,VoronoiHull-method |
Prepare data for model fitting | prepareData |
Pair-wise distance sampling | pwdSample |
Random null model | nullRandom |
Random points | randomPoints |
Rectangular hull model | RectangularHull-class rectHull rectHull,data.frame-method rectHull,matrix-method rectHull,SpatialPoints-method |
response plots | response response,ANY-method response,DistModel-method response,MaxEntReplicates-method |
Spatial sorting bias | ssb |
Find a threshold | threshold threshold,ModelEvaluation-method |
Voronoi polygons | voronoi voronoi,ANY-method |
Voronoi hull model | voronoiHull voronoiHull,data.frame,data.frame-method voronoiHull,matrix,matrix-method voronoiHull,SpatialPoints,SpatialPoints-method VoronoiHull-class |