Package index
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show(<ENMdetails>) - ENMdetails class
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ENMevalENMeval-package - Automated runs and evaluations of ecological niche models
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ENMevaluate() - Tune ecological niche model (ENM) settings and calculate evaluation statistics
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show(<ENMevaluation>) - ENMevaluation class
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ENMevaluation_convert() - Convert old ENMevaluation objects to new ones
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show(<ENMnull>) - ENMnull class
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ENMnulls() - Generate null ecological niche models (ENMs) and compare null with empirical performance metrics
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aic.maxent() - Calculate AICc from Maxent model prediction
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buildRMM() - Build metadata object from ENMeval results
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bvariegatus - Example occurrence dataset.
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calc.10p.trainThresh() - Calculate 10 percentile threshold
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calc.niche.overlap() - Calculate Similarity of ENMs in Geographic Space
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clamp.vars() - Clamp predictor variables
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corrected.var() - Corrected variance function
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emp.bg() - emp.bg generic for ENMnull object
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emp.bg.grp() - emp.bg.grp generic for ENMnull object
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emp.occs() - emp.occs generic for ENMnull object
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emp.occs.grp() - emp.occs.grp generic for ENMnull object
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enm.args()`enm.args<-`() - enm.args generic for ENMdetails object
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enm.bioclim - ENMdetails bioclim
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enm.errors()`enm.errors<-`() - enm.errors generic for ENMdetails object
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enm.fun()`enm.fun<-`() - enm.fun generic for ENMdetails object
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enm.maxent.jar - ENMdetails maxent.jar
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enm.maxnet - ENMdetails maxnet
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enm.msgs()`enm.msgs<-`() - enm.msgs generic for ENMdetails object
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enm.name()`enm.name<-`() - eval.name generic for ENMdetails object
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enm.ncoefs()`enm.ncoefs<-`() - enm.ncoefs generic for ENMdetails object
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enm.predict()`enm.predict<-`() - enm.predict generic for ENMdetails object
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enm.variable.importance()`enm.variable.importance<-`() - enm.variable.importance generic for ENMdetails object
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enmeval_results - Example ENMevaluation object.
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eval.algorithm() - eval.algorithm generic for ENMevaluation object
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eval.bg() - eval.bg generic for ENMevaluation object
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eval.bg.grp() - eval.bg.grp generic for ENMevaluation object
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eval.clamp.directions() - eval.clamp.directions generic for ENMevaluation object
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eval.doClamp() - eval.doClamp generic for ENMevaluation object
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eval.models()eval.variable.importance(<ENMevaluation>) - eval.models generic for ENMevaluation object
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eval.occs() - eval.occs generic for ENMevaluation object
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eval.occs.grp() - eval.occs.grp generic for ENMevaluation object
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eval.occs.testing() - eval.occs.testing generic for ENMevaluation object
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eval.other.settings() - eval.other.settings generic for ENMevaluation object
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eval.overlap() - eval.overlap generic for ENMevaluation object
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eval.partition.method() - eval.partition.method generic for ENMevaluation object
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eval.partition.settings() - eval.partition.settings generic for ENMevaluation object
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eval.predictions() - eval.predictions generic for ENMevaluation object
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eval.results() - eval.results generic for ENMevaluation object
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eval.results.partitions() - eval.results.partitions generic for ENMevaluation object
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eval.rmm() - eval.rmm generic for ENMevaluation object
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eval.taxon.name() - eval.taxon.name generic for ENMevaluation object
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eval.tune.settings() - eval.tune.settings generic for ENMevaluation object
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eval.variable.importance() - eval.variable.importance (variable importance) generic for ENMevaluation object
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evalplot.envSim.hist() - Similarity histogram plots for partition groups
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evalplot.envSim.map() - Similarity maps for partition groups
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evalplot.grps() - Partition group plots
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evalplot.nulls() - ENMnulls statistics plot
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evalplot.stats() - ENMevaluation statistics plot
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loadENMevaluation() - Load ENMevaluation object
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lookup.enm() - Look up ENMdetails abject
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maxentJARversion() - Look up version of maxent.jar
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maxnet.predictRaster() - Predict raster for maxnet
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null.algorithm() - null.algorithm generic for ENMnull object
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null.doClamp() - null.doClamp generic for ENMnull object
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null.emp.results() - null.emp.results generic for ENMnull object
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null.mod.settings() - null.mod.settings generic for ENMnull object
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null.no.iter() - null.no.iter generic for ENMnull object
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null.other.settings() - null.other.settings generic for ENMnull object
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null.partition.method() - null.partition.method generic for ENMnull object
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null.partition.settings() - null.partition.settings generic for ENMnull object
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null.results() - null.results generic for ENMnull object
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null.results.partitions() - null.results.partitions generic for ENMnull object
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parse_lambdas() - Parse Maxent lambdas information
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get.block()get.checkerboard()get.checkerboard1()get.checkerboard2()get.jackknife()get.randomkfold() - Methods to partition data for evaluation
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saveENMevaluation() - Save ENMevaluation object
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tune.train()tune.validate()tune()cv.enm() - Iterate tuning of ENMs