sdm: Species Distribution Modelling

An extensible R framework for developing species distribution models using individual and community-based approaches, generate ensembles of models, evaluate the models, and predict species potential distributions in space and time.

AuthorBabak Naimi, Miguel B. Araujo
Date of publication2016-12-02 23:13:39
MaintainerBabak Naimi <naimi.b@gmail.com>
LicenseGPL (>= 3)
Version1.0-32
http://biogeoinformatics.org

View on CRAN

Functions

[[ Man page
add Man page
add,list,character-method Man page
as.data.frame Man page
as.data.frame,sdmdata-method Man page
boxplot Man page
boxplot,sdmEvaluate-method Man page
calibration Man page
calibration,sdmEvaluate,missing-method Man page
calibration,vector,vector-method Man page
characterORmissing-class Man page
characterORnull-class Man page
coordinates Man page
coordinates<- Man page
coordinates<-,sdmdata-method Man page
coordinates,sdmdata-method Man page
coordinates,sdmModels-method Man page
CRSorNULL-class Man page
data.frameORnull-class Man page
density Man page
density,sdmEvaluate-method Man page
ensemble Man page
ensemble,sdmModels-method Man page
ensemble,sdmModels,Raster-method Man page
environmentORnull-class Man page
evaluates Man page
evaluates,vector,vector-method Man page
featuresFrame-class Man page
formulaORnull-class Man page
functionORcharacter-class Man page
functionORnull-class Man page
getEvaluation Man page
getEvaluation,sdmModels-method Man page
getmethod Man page
getmethod,character-method Man page
getmethodNames Man page
getmethodNames,ANY-method Man page
getModelInfo Man page
getModelInfo,sdmModels-method Man page
getRoc Man page
getRoc,sdmModels,ANY-method Man page
getRoc,vector,vector-method Man page
getVarImp Man page
getVarImp,sdmModels-method Man page
gui Man page
gui,sdmModels-method Man page
installAll Man page
installAll,ANY-method Man page
listORcharacter-class Man page
listORnull-class Man page
matrixORnull-class Man page
names Man page
names<- Man page
names<-,sdmdata-method Man page
names,sdmdata-method Man page
numericORnull-class Man page
predict Man page
predict,.maxlikeModel-method Man page
predict,sdmModels-method Man page
read.sdm Man page
read.sdm,character-method Man page
roc Man page
roc,sdmModels,ANY-method Man page
roc,sdmModels-method Man page
roc,vector,vector-method Man page
sdm Man page
sdmCorrelativeMethod-class Man page
sdmData Man page
[,sdmdata,ANY,ANY-method Man page
sdmData,ANY,data.frame,ANY,missing-method Man page
sdmData,ANY,data.frame,missing,missing-method Man page
sdmData,ANY,SpatialPoints,ANY,missing-method Man page
sdmData,ANY,SpatialPoints,ANY,Raster-method Man page
sdmdata-class Man page
sdmData,data.frame,formula,ANY,missing-method Man page
sdmData,data.frame,missing,ANY,missing-method Man page
[,sdmdata,missing,missing-method Man page
sdmEvaluate-class Man page
sdmFormula-class Man page
sdm,formula,sdmdata,character-method Man page
[[,sdmModels,ANY,ANY-method Man page
sdmModels-class Man page
sdmSetting Man page
sdmSetting,ANY,sdmdata,character-method Man page
show,sdmdata-method Man page
show,sdmModels-method Man page
show,sdmSetting-method Man page
subset Man page
subset,sdmModels-method Man page
write.sdm Man page
write.sdm,.sdmCorSetting,character-method Man page
write.sdm,sdmdata,character-method Man page
write.sdm,sdmModels,character-method Man page

Files

sdm
sdm/inst
sdm/inst/shinyApps
sdm/inst/shinyApps/css.rds
sdm/inst/shinyApps/sdmgui
sdm/inst/shinyApps/sdmgui/ui.R
sdm/inst/shinyApps/sdmgui/server.R
sdm/inst/shinyApps/sdmgui/www
sdm/inst/shinyApps/sdmgui/www/bootstrap.min.css
sdm/inst/shinyApps/sdmgui/www/sdm_design.png
sdm/inst/CITATION
sdm/inst/methods
sdm/inst/methods/sdm
sdm/inst/methods/sdm/rpart.R
sdm/inst/methods/sdm/maxent.R
sdm/inst/methods/sdm/glm.R
sdm/inst/methods/sdm/glmnet.R
sdm/inst/methods/sdm/brt.R
sdm/inst/methods/sdm/gam.R
sdm/inst/methods/sdm/mda.R
sdm/inst/methods/sdm/mars.R
sdm/inst/methods/sdm/bioclim.R
sdm/inst/methods/sdm/maxlike.R
sdm/inst/methods/sdm/rf.R
sdm/inst/methods/sdm/svm.R
sdm/inst/methods/sdm/bioclimDismo.R
sdm/inst/methods/sdm/fda.R
sdm/inst/methods/sdm/cart.R
sdm/inst/test
sdm/inst/test/pca.R
sdm/inst/test/sdmgui.R
sdm/inst/doc
sdm/inst/doc/quick_sdm.Rmd
sdm/inst/doc/quick_sdm.html
sdm/inst/external
sdm/inst/external/predictors.grd
sdm/inst/external/species.shp
sdm/inst/external/temperature.asc
sdm/inst/external/model.sdm
sdm/inst/external/po_spatial_points.shx
sdm/inst/external/po_spatial_points.dbf
sdm/inst/external/vegetation.asc
sdm/inst/external/po_spatial_points.shp
sdm/inst/external/pa_spatial_points.shx
sdm/inst/external/precipitation.asc
sdm/inst/external/species.prj
sdm/inst/external/pa_spatial_points.dbf
sdm/inst/external/pa_df.csv
sdm/inst/external/species.shx
sdm/inst/external/po_xy.shp
sdm/inst/external/multi_pa_df.csv
sdm/inst/external/pa_df_with_xy.csv
sdm/inst/external/predictors.gri
sdm/inst/external/species.dbf
sdm/inst/external/elevation.asc
sdm/inst/external/data.sdd
sdm/inst/external/pa_spatial_points.shp
sdm/NAMESPACE
sdm/R
sdm/R/sdmMethods.R sdm/R/varImp.R sdm/R/write.R sdm/R/sdmFormula.R sdm/R/subset.R sdm/R/replicate.R sdm/R/modelFrame.R sdm/R/plot.R sdm/R/maxent.R sdm/R/predict.R sdm/R/show.R sdm/R/methods.R sdm/R/density.R sdm/R/coordinates.R sdm/R/bioclim.R sdm/R/gui.R sdm/R/calibration.R sdm/R/maxlike.R sdm/R/ensemble.R sdm/R/names.R sdm/R/evaluates.R sdm/R/roc.R sdm/R/getData.R sdm/R/isntallAll.R sdm/R/AAAClasses.R sdm/R/sdm.R sdm/R/sdmData.R sdm/R/zzz.R
sdm/vignettes
sdm/vignettes/quick_sdm.Rmd
sdm/MD5
sdm/build
sdm/build/vignette.rds
sdm/DESCRIPTION
sdm/man
sdm/man/add.Rd sdm/man/names.Rd sdm/man/as.data.frame.Rd sdm/man/varImportance.Rd sdm/man/installAll.Rd sdm/man/getModelInfo.Rd sdm/man/calibration.Rd sdm/man/gui.Rd sdm/man/sdmdata-class.Rd sdm/man/sdm.Rd sdm/man/predict.Rd sdm/man/read.sdm.Rd sdm/man/sdmData.Rd sdm/man/sdmSetting.Rd sdm/man/coordinates.Rd sdm/man/sdmCorrelativeMethod-class.Rd sdm/man/boxplot.Rd sdm/man/sdmModel-class.Rd sdm/man/ensemble.Rd sdm/man/featuresFrame-class.Rd sdm/man/roc.Rd sdm/man/extractIndex.Rd sdm/man/subset.Rd sdm/man/density.Rd sdm/man/evaluates.Rd

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