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.

Install the latest version of this package by entering the following in R:
install.packages("sdm")
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

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