MIAmaxent: Maxent Distribution Model Selection
Version 0.4.0

Tools for training, selecting, and evaluating maximum entropy (Maxent) distribution models. This package provides tools for user- controlled transformation of explanatory variables, selection of variables by nested model comparison, and flexible model evaluation and projection. It is based on the strict maximum likelihood interpretation of maximum entropy modelling.

AuthorJulien Vollering [aut, cre], Sabrina Mazzoni [aut], Rune Halvorsen [aut]
Date of publication2017-02-14 12:14:10
MaintainerJulien Vollering <julien.vollering@hvl.no>
LicenseMIT + file LICENSE
Version0.4.0
URL https://github.com/julienvollering/MIAmaxent
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("MIAmaxent")

Getting started

README.md
A modeling example"

Popular man pages

MIAmaxent: MIAmaxent: Maxent Distribution Model Selection.
modelfromlambdas: Maxent model from .lambdas file.
plotResp: Plot single-effect model response.
readData: Read in data object from files.
selectDVforEV: Select parsimonious sets of derived variables.
testAUC: Calculate model AUC with test data.
toydata_seldvs: Selected derived variables accompanied by selection trails,...
See all...

All man pages Function index File listing

Man pages

deriveVars: Derive variables by transformation.
MIAmaxent: MIAmaxent: Maxent Distribution Model Selection.
modelfromlambdas: Maxent model from .lambdas file.
plotFOP: Plot Frequency of Observed Presence (FOP).
plotResp: Plot single-effect model response.
plotResp2: Plot marginal-effect model response.
projectModel: Project model to data.
readData: Read in data object from files.
release_questions: Reminders when using devtools::release
selectDVforEV: Select parsimonious sets of derived variables.
selectEV: Select parsimonious set of explanatory variables.
testAUC: Calculate model AUC with test data.
toydata_dvs: Derived variables and transformation functions, from toy...
toydata_seldvs: Selected derived variables accompanied by selection trails,...
toydata_selevs: Selected explanatory variables accompanied by selection...
toydata_sp1po: Occurrence and environmental toy data.

Functions

MIAmaxent Man page
MIAmaxent-package Man page
binaryrvcheck Source code
check.dvs.in.data Source code
check.dvs.in.transf Source code
deriveVars Man page Source code
dirpath.create Source code
dvsfromev Source code
ewma Source code
fopoptimum Source code
load.transf Source code
minskew Source code
modelfromlambdas Man page Source code
parsdvs Source code
parsevs Source code
plotFOP Man page Source code
plotResp Man page Source code
plotResp2 Man page Source code
projectModel Man page Source code
readData Man page Source code
release_questions Man page Source code
runjar Source code
scalex Source code
selectDVforEV Man page Source code
selectEV Man page Source code
splselect Source code
testAUC Man page Source code
toydata_dvs Man page
toydata_seldvs Man page
toydata_selevs Man page
toydata_sp1po Man page
transfB Source code
transfD Source code
transfL Source code
transfM Source code
transfSpline Source code

Files

inst
inst/java
inst/java/README-java
inst/extdata
inst/extdata/occurrence_PA.csv
inst/extdata/occurrence_PO.csv
inst/extdata/EV_categorical
inst/extdata/EV_categorical/geolmja1.asc
inst/extdata/EV_categorical/geoberg.asc
inst/extdata/EV_categorical/terslpps15.asc
inst/extdata/EV_categorical/lcucor1.asc
inst/extdata/EV_categorical/lcutil_t4.asc
inst/extdata/EV_continuous
inst/extdata/EV_continuous/teraspif.asc
inst/extdata/EV_continuous/pr_bygall.asc
inst/extdata/EV_continuous/tertpi09.asc
inst/extdata/EV_continuous/pr_tilany.asc
inst/extdata/EV_continuous/tersolrade.asc
inst/extdata/EV_continuous/pca1.asc
inst/extdata/EV_continuous/terdem.asc
inst/extdata/EV_continuous/terslpdg.asc
inst/extdata/1.lambdas
inst/extdata/sommerfeltia
inst/extdata/sommerfeltia/Sp1.csv
inst/extdata/sommerfeltia/EV_continuous
inst/extdata/sommerfeltia/EV_continuous/EV14.asc
inst/extdata/sommerfeltia/EV_continuous/EV11.asc
inst/extdata/sommerfeltia/EV_continuous/EV12.asc
inst/extdata/sommerfeltia/EV_continuous/EV13.asc
inst/extdata/sommerfeltia/1.lambdas
inst/doc
inst/doc/modeling-example.html
inst/doc/modeling-example.html.asis
NAMESPACE
NEWS.md
data
data/toydata_selevs.rda
data/toydata_sp1po.rda
data/toydata_dvs.rda
data/toydata_seldvs.rda
R
R/utils.R
R/plotResp.R
R/parsevs.R
R/modelfromlambdas.R
R/selectEV.R
R/deriveVars.R
R/plotFOP.R
R/data.R
R/MIAmaxent.R
R/testAUC.R
R/plotResp2.R
R/dvsfromev.R
R/transfclosures.R
R/parsdvs.R
R/readData.R
R/selectDVforEV.R
R/splselect.R
R/projectModel.R
vignettes
vignettes/modeling-example.Rmd
vignettes/modeling-example.html.asis
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/toydata_selevs.Rd
man/figures
man/figures/workflow-flowchart.png
man/figures/workflow-flowchart.pdf
man/toydata_seldvs.Rd
man/deriveVars.Rd
man/selectDVforEV.Rd
man/toydata_dvs.Rd
man/testAUC.Rd
man/readData.Rd
man/selectEV.Rd
man/modelfromlambdas.Rd
man/plotResp2.Rd
man/plotResp.Rd
man/toydata_sp1po.Rd
man/MIAmaxent.Rd
man/plotFOP.Rd
man/projectModel.Rd
man/release_questions.Rd
LICENSE
MIAmaxent documentation built on May 19, 2017, 5:32 p.m.

Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

Please suggest features or report bugs in the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.