gradientForest: Random Forest functions for the Census of Marine Life synthesis project.

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Analyses species data using random forests, collates the split-point improvements in impurity, and uses these to convert predictor variables into a biologically-informed importance scale. This version allows combinations of gradientForest objects with different predictors.

Author
S.J. Smith <Stephen.Smith@dfo-mpo.gc.ca> and N. Ellis <Nick.Ellis@csiro.au>
Date of publication
2014-11-28 05:50:59
Maintainer
N. Ellis <Nick.Ellis@csiro.au>
License
GPL (>= 2)
Version
0.1-17
URLs

View on R-Forge

Man pages

combinedGradientForest
Combine gradientForest objects
CoMLsimulation
Simulated site-species data
cumimp.combinedGradientForest
Cumulative Importance of predictors for a...
cumimp.gradientForest
Cumulative Importance of predictors for a 'gradientForest'...
density.gradientForest
Gaussian kernel density estimates
GBRexample
Great Barrier Reef example data
gradientForest
Create gradientforest objects
importance.combinedGradientForest
Importance of predictors or species for a...
importance.gradientForest
Importance of the variables in a 'gradientForest' or...
plot.gradientForest
Plots for gradientForest objects
plot.predict.gradientForest
Plot a 'gradientForest' prediction in geographical space
predict.gradientForest
Predict for gradientForest
print.gradientForest
Printing 'gradientForest' or 'combinedGradientForest' objects

Files in this package

gradientForest/DESCRIPTION
gradientForest/NAMESPACE
gradientForest/R
gradientForest/R/Impurity.based.measures.R
gradientForest/R/agg.sum.R
gradientForest/R/bin.R
gradientForest/R/combine.cumulative.importance.lm.r
gradientForest/R/combine.cumulative.importance.method1.r
gradientForest/R/combine.cumulative.importance.r
gradientForest/R/combined.cumulative.importance.plot.r
gradientForest/R/combined.performance.plot.r
gradientForest/R/combinedGradientForest.r
gradientForest/R/cumimp.combinedGradientForest.r
gradientForest/R/cumimp.gradientForest.r
gradientForest/R/cumimp.r
gradientForest/R/density.combinedGradientForest.r
gradientForest/R/density.gradientForest.r
gradientForest/R/getSplitImprove.R
gradientForest/R/getSplitImproveClass.R
gradientForest/R/getSplitImproveClassCompact.r
gradientForest/R/getSplitImproveCompact.r
gradientForest/R/gradientForest.R
gradientForest/R/importance.combinedGradientForest.r
gradientForest/R/importance.gradientForest.r
gradientForest/R/n2mfrow.r
gradientForest/R/namenames.r
gradientForest/R/overall.importance.combinedGradientForest.plot.r
gradientForest/R/overall.importance.plot.R
gradientForest/R/performance.plot.R
gradientForest/R/plot.combinedGradientForest.r
gradientForest/R/plot.gradientForest.r
gradientForest/R/plot.predict.gradientForest.r
gradientForest/R/predict.combinedGradientForest.r
gradientForest/R/predict.gradientForest.r
gradientForest/R/predictor.density.plot.r
gradientForest/R/predictor.ranges.plot.r
gradientForest/R/print.combinedGradientForest.r
gradientForest/R/print.gradientForest.r
gradientForest/R/species.cumulative.plot.R
gradientForest/R/split.density.plot.method2.R
gradientForest/R/whiten.R
gradientForest/build
gradientForest/build/vignette.rds
gradientForest/data
gradientForest/data/CoMLsimulation.rda
gradientForest/data/GBRexample.rda
gradientForest/data/datalist
gradientForest/inst
gradientForest/inst/CITATION
gradientForest/inst/doc
gradientForest/inst/doc/GZ.phys.grid.Rdata
gradientForest/inst/doc/GZ.phys.site.Rdata
gradientForest/inst/doc/GZ.sps.mat.Rdata
gradientForest/inst/doc/biodiversity-survey.R
gradientForest/inst/doc/biodiversity-survey.pdf
gradientForest/inst/doc/biodiversity-survey.rnw
gradientForest/inst/doc/gf.Rdata
gradientForest/man
gradientForest/man/CoMLsimulation.Rd
gradientForest/man/GBRexample.Rd
gradientForest/man/combinedGradientForest.Rd
gradientForest/man/cumimp.combinedGradientForest.Rd
gradientForest/man/cumimp.gradientForest.Rd
gradientForest/man/density.gradientForest.Rd
gradientForest/man/gradientForest.Rd
gradientForest/man/importance.combinedGradientForest.Rd
gradientForest/man/importance.gradientForest.Rd
gradientForest/man/plot.combinedGradientForest.rd
gradientForest/man/plot.gradientForest.Rd
gradientForest/man/plot.predict.gradientForest.Rd
gradientForest/man/predict.gradientForest.Rd
gradientForest/man/print.gradientForest.Rd
gradientForest/vignettes
gradientForest/vignettes/GZ.phys.grid.Rdata
gradientForest/vignettes/GZ.phys.site.Rdata
gradientForest/vignettes/GZ.sps.mat.Rdata
gradientForest/vignettes/biodiversity-survey.bib
gradientForest/vignettes/biodiversity-survey.rnw
gradientForest/vignettes/gf.Rdata