R2BayesX: Estimate Structured Additive Regression Models with 'BayesX'
Version 1.1-0

An R interface to estimate structured additive regression (STAR) models with 'BayesX'.

AuthorNikolaus Umlauf [aut, cre], Thomas Kneib [aut], Stefan Lang [aut], Achim Zeileis [aut]
Date of publication2016-11-17 10:48:35
MaintainerNikolaus Umlauf <Nikolaus.Umlauf@uibk.ac.at>
LicenseGPL-2 | GPL-3
Version1.1-0
Package repositoryView on R-Forge
InstallationInstall the latest version of this package by entering the following in R:
install.packages("R2BayesX", repos="http://R-Forge.R-project.org")

Getting started

Package overview

Popular man pages

bayesx: Estimate STAR Models with BayesX
bayesx.control: Control Parameters for BayesX
BeechGra: Beech Neighborhood Information
GAMart: GAM Artificial Data Set
getscript: Generate an executable R fitted model script
plot2d: 2D Effect Plot
plotmap: Plot Maps
See all...

All man pages Function index File listing

Man pages

add.neighbor: Add Neighborhood Relations
bayesx: Estimate STAR Models with BayesX
bayesx.construct: Construct BayesX Model Term Objects
bayesx.control: Control Parameters for BayesX
bayesx.term.options: Show BayesX Term Options
BeechBnd: Beech Location Map
BeechGra: Beech Neighborhood Information
bnd2gra: Convert Boundary Format to Graph Format
colorlegend: Plot a Color Legend
cprob: Extract Contour Probabilities
delete.neighbor: Delete Neighborhood Relations
DIC: Deviance Information Criterion
FantasyBnd: Fantasy Map
fitted.bayesx: Extract BayesX Fitted Values and Residuals
ForestHealth: Forest Health Data
GAMart: GAM Artificial Data Set
GCV: Gerneralized Cross Validation Criterion
GermanyBnd: Germany Map
get.neighbor: Obtain Neighbors of Given Regions
getscript: Generate an executable R fitted model script
GRstats: Compute Gelman and Rubin's convergence diagnostics from...
logfile: BayesX Log-Files
MunichBnd: Munich Map
nbAndGraConversion: Convert nb and gra format into each other
parse.bayesx.input: Parse BayesX Input
plot2d: 2D Effect Plot
plot3d: 3D Effect Plot
plot.bayesx: Default BayesX Plotting
plotblock: Factor Variable and Random Effects Plots
plotmap: Plot Maps
plotsamples: Plot Sampling Path(s) of Coefficient(s) and Variance(s)
predict.bayesx: Prediction from fitted BayesX objects
prgfile: BayesX Program-Files
R2BayesX-package: Estimate STAR Models with BayesX
read.bayesx.output: Read BayesX Output from Directories
read.bnd: Read Geographical Information in Boundary Format
read.gra: Read Geographical Information in Graph Format
runtime: BayesX Program-Runtimes
samples: Extract Samples of Coefficients and Variances
shp2bnd: convert a shape-file into a boundary object
sliceplot: Plot Slices of Bivariate Functions
spAndBndConversion: Convert sp and bnd format into each other
summary.bayesx: Bayesx Summary Statistics
sx: Construct BayesX Model Terms in A Formula
term.freqs: Extract model term selection frequencies.
write.bayesx.input: Write the BayesX Program
write.bnd: Saving Maps in Boundary Format
write.gra: Saving Maps in Graph Format
ZambiaBnd: Zambia Map
ZambiaNutrition: Determinants of Childhood Malnutrition in Zambia

Functions

AIC.bayesx Source code
BIC.bayesx Source code
BeechBnd Man page
BeechGra Man page
DIC Man page Source code
DIC.bayesx Man page Source code
FantasyBnd Man page
ForestHealth Man page
GAMart Man page Source code
GCV Man page Source code
GCV.bayesx Man page Source code
GRstats Man page Source code
GermanyBnd Man page
MunichBnd Man page
Predict.matrix.nu.smooth Source code
R2BayesX Man page
R2BayesX-package Man page
VPC Source code
ZambiaBnd Man page
ZambiaNutrition Man page
add.neighbor Man page Source code
approx.quantile Source code
bayesx Man page Source code
bayesx.construct Man page Source code
bayesx.construct.bl.smooth.construct Man page
bayesx.construct.default Source code
bayesx.construct.factor.smooth.construct Man page
bayesx.construct.factor.smooth.spec Source code
bayesx.construct.generic.smooth.spec Source code
bayesx.construct.gk.smooth.construct Man page
bayesx.construct.gs.smooth.construct Man page
bayesx.construct.kr.smooth.construct Man page
bayesx.construct.lasso.smooth.construct Man page
bayesx.construct.lasso.smooth.spec Source code
bayesx.construct.mrf.smooth.construct Man page
bayesx.construct.nigmix.smooth.construct Man page
bayesx.construct.nigmix.smooth.spec Source code
bayesx.construct.offset.smooth.spec Source code
bayesx.construct.ps.smooth.construct Man page
bayesx.construct.pspline2dimrw1.smooth.spec Source code
bayesx.construct.ra.smooth.construct Man page
bayesx.construct.random.smooth.spec Source code
bayesx.construct.re.smooth.construct Man page
bayesx.construct.ridge.smooth.construct Man page
bayesx.construct.ridge.smooth.spec Source code
bayesx.construct.rsps.smooth.spec Source code
bayesx.construct.rw1.smooth.construct Man page
bayesx.construct.rw1.smooth.spec Source code
bayesx.construct.rw2.smooth.construct Man page
bayesx.construct.rw2.smooth.spec Source code
bayesx.construct.season.smooth.construct Man page
bayesx.construct.season.smooth.spec Source code
bayesx.construct.te.smooth.construct Man page
bayesx.construct.tensor.smooth.construct Man page
bayesx.control Man page Source code
bayesx.reformate Source code
bayesx.reorder Source code
bayesx.term.options Man page
bayesx_logfile Man page Source code
bayesx_prgfile Man page Source code
bayesx_runtime Man page
blow.up.resid Source code
bnd2gra Man page Source code
bnd2sp Man page Source code
bxopts Man page
c.bayesx Source code
centroidpos Source code
centroids Source code
centroidtext Source code
chacol Source code
coef.bayesx Source code
coeffun Source code
collect Source code
collect2 Source code
colorlegend Man page Source code
compute.x.id Source code
confbayesx Source code
confint.bayesx Source code
construct.shrw Source code
cpoint Source code
cpos Source code
cprob Man page Source code
d2contrsum Source code
delete.NULLs Source code
delete.args Source code
delete.neighbor Man page Source code
df2m Source code
df2m2 Source code
do.xt Source code
dopos Source code
drawmap Man page Source code
edf Source code
extract.model.diagnostic Source code
f2int Source code
find.fixed.effects Source code
find.limits Source code
find.smooth.random Source code
fitted.bayesx Man page Source code
forest Man page
gad Source code
gamart Man page
geo.smooth.spec Source code
get.eta Source code
get.max.hlevel Source code
get.model Source code
get.neighbor Man page Source code
get.scale Source code
get.unique Source code
getscript Man page Source code
getuit Source code
gra2nb Man page Source code
help.map.name Source code
interp2 Source code
is.f Source code
is.rt Source code
is.sm Source code
kde.quantiles Source code
logLik.bayesx Source code
logfile Man page
make.label Source code
make_by Source code
make_pal Source code
measure Source code
model.frame.bayesx Source code
mum Source code
nb2gra Man page Source code
neffects Source code
parse.bayesx.input Man page Source code
parse.random.bayesx Source code
pd Source code
plot.bayesx Man page Source code
plot.bnd Man page Source code
plot.fit.bayesx Source code
plot.geo.bayesx Source code
plot.linear.bayesx Source code
plot.mrf.bayesx Source code
plot.random.bayesx Source code
plot.sm.bayesx Source code
plot.varying.bayesx Source code
plot2d Man page Source code
plot2d.default Source code
plot3d Man page Source code
plotblock Man page Source code
plotmap Man page Source code
plotnonp Man page Source code
plotsamples Man page Source code
plotsurf Man page Source code
predict.bayesx Man page Source code
prgfile Man page
print.bayesx Source code
print.bayesx.script Source code
print.summary.bayesx Source code
print_bayesx Source code
print_summary_bayesx Source code
r Source code
r2bayesx Man page
r2bayesx-package Man page
read.bayesx.model.output Source code
read.bayesx.output Man page Source code
read.bnd Man page Source code
read.gra Man page Source code
recol Source code
residuals.bayesx Man page Source code
resplit Source code
ringDirxy Source code
rmbhmf Source code
rmf Source code
rmfs Source code
rmfscript Source code
rrd Source code
rrmfs Source code
runtime Man page
s4bs Source code
s4class Source code
s4dim Source code
s4hm Source code
samples Man page Source code
samplesacf Source code
search.bayesx.models Source code
search.bayesx.tex Source code
set.hlevel.stuff Source code
set.max.hlevel Source code
set.plot2d.specs Source code
setmfrow Source code
sfoofun Source code
shp2bnd Man page Source code
sliceplot Man page Source code
smi Source code
smooth.construct.nu.smooth.spec Source code
sp2bnd Man page Source code
split.terms Source code
splitme Source code
summary.bayesx Man page Source code
sx Man page Source code
term.freqs Man page Source code
term.names Source code
term.reorder Source code
terms.bayesx Source code
textfun Source code
unique.id Source code
which.plots Source code
write.bayesx.input Man page Source code
write.bnd Man page Source code
write.gra Man page Source code
write.prg.setup Source code
write.term.info Source code
x2df Source code
x2int Source code
zambia Man page

Files

DESCRIPTION
NAMESPACE
R
R/AIC.bayesx.R
R/BIC.bayesx.R
R/DIC.R
R/DIC.bayesx.R
R/GAMart.R
R/GCV.R
R/GCV.bayesx.R
R/GRstats.R
R/Predict.matrix.nu.smooth.R
R/VPC.R
R/add.neighbor.R
R/bayesx.R
R/bayesx.construct.R
R/bayesx.construct.bl.smooth.spec.R
R/bayesx.construct.cs.smooth.spec.R
R/bayesx.construct.factor.smooth.spec.R
R/bayesx.construct.generic.smooth.spec.R
R/bayesx.construct.gk.smooth.spec.R
R/bayesx.construct.gs.smooth.spec.R
R/bayesx.construct.kr.smooth.spec.R
R/bayesx.construct.lasso.smooth.spec.R
R/bayesx.construct.mrf.smooth.spec.R
R/bayesx.construct.nigmix.smooth.spec.R
R/bayesx.construct.offset.smooth.spec.R
R/bayesx.construct.ps.smooth.spec.R
R/bayesx.construct.ra.smooth.spec.R
R/bayesx.construct.ridge.smooth.spec.R
R/bayesx.construct.rw1.smooth.spec.R
R/bayesx.construct.rw2.smooth.spec.R
R/bayesx.construct.season.smooth.spec.R
R/bayesx.construct.te.smooth.spec.R
R/bayesx.construct.tensor.smooth.spec.R
R/bayesx.control.R
R/bayesx.reformate.R
R/bayesx.term.options.R
R/bayesx_logfile.R
R/bayesx_prgfile.R
R/bayesx_runtime.R
R/blow.up.resid.R
R/bnd2gra.R
R/c.bayesx.R
R/centroidpos.R
R/centroids.R
R/centroidtext.R
R/chacol.R
R/coef.bayesx.R
R/coeffun.R
R/colorlegend.R
R/compute.x.id.R
R/confbayesx.R
R/confint.bayesx.R
R/construct.shrw.R
R/cpoint.R
R/cpos.R
R/cprob.R
R/d2contrsum.R
R/delete.Nulls.R
R/delete.args.R
R/delete.neighbor.R
R/df2m.R
R/df2m2.R
R/do.xt.R
R/dopos.R
R/drawmap.R
R/edf.R
R/extract.model.diagnostic.R
R/f2int.R
R/find.fixed.effects.R
R/find.limits.R
R/find.smooth.random.R
R/fitted.bayesx.R
R/geo.smooth.spec.R
R/get.eta.R
R/get.kde.range.R
R/get.model.R
R/get.neighbor.R
R/get.scale.R
R/get.unique.R
R/getscript.R
R/getuit.R
R/help.map.name.R
R/interp2.R
R/is.f.R
R/is.rt.R
R/is.sm.R
R/logLik.bayesx.R
R/make.label.R
R/make_by.R
R/make_pal.R
R/measure.R
R/model.frame.bayesx.R
R/mum.R
R/nbAndGraConversion.R
R/neffects.R
R/parse.bayesx.input.R
R/parse.random.bayesx.R
R/pd.R
R/plot.bayesx.R
R/plot.bnd.R
R/plot.fit.bayesx.R
R/plot.geo.bayesx.R
R/plot.linear.bayesx.R
R/plot.mrf.bayesx.R
R/plot.random.bayesx.R
R/plot.sm.bayesx.R
R/plot.varying.bayesx.R
R/plot2d.R
R/plot2d.default.R
R/plot3d.R
R/plotblock.R
R/plotmap.R
R/plotnonp.R
R/plotsamples.R
R/plotsurf.R
R/predict.bayesx.R
R/print.bayesx.R
R/print.summary.bayesx.R
R/r.R
R/r2bayesx-internal.R
R/read.bayesx.model.output.R
R/read.bayesx.output.R
R/read.bnd.R
R/read.gra.R
R/recol.R
R/residuals.bayesx.R
R/resplit.R
R/ringDirxy.R
R/rmf.R
R/rrd.R
R/s4class.R
R/s4dim.R
R/s4hm.R
R/samples.R
R/search.bayesx.models.R
R/search.bayesx.tex.R
R/set.hlevel.stuff.R
R/set.plot2d.specs.R
R/setmfrow.R
R/sfoofun.R
R/shp2bnd.R
R/sliceplot.R
R/smi.R
R/smooth.construct.nu.smooth.spec.R
R/spAndBndConversion.R
R/split.terms.R
R/splitme.R
R/summary.bayesx.R
R/sx.R
R/term.freqs.R
R/term.names.R
R/term.reorder.R
R/terms.bayesx.R
R/textfun.R
R/unique.id.R
R/which.plots.R
R/write.bayesx.input.R
R/write.bnd.R
R/write.gra.R
R/write.prg.setup.R
R/write.term.info.R
R/x2int.R
data
data/BeechBnd.rda
data/BeechGra.rda
data/FantasyBnd.rda
data/ForestHealth.rda
data/GAMart.rda
data/GermanyBnd.rda
data/MunichBnd.rda
data/ZambiaBnd.rda
data/ZambiaNutrition.rda
demo
demo/00Index
demo/ForestHealth.R
demo/ZambiaNutrition.R
inst
inst/CITATION
inst/examples
inst/examples/Germany.bnd
inst/examples/Germany.gra
inst/examples/Northamerica.dbf
inst/examples/Northamerica.shp
inst/examples/Northamerica.shx
inst/examples/ex01
inst/examples/ex01/exmodel.data.raw
inst/examples/ex01/exmodel_FixedEffects1.res
inst/examples/ex01/exmodel_FixedEffects1_sample.raw
inst/examples/ex01/exmodel_deviance_sample.raw
inst/examples/ex01/exmodel_f_id_spatial.res
inst/examples/ex01/exmodel_f_id_spatial_lambda.res
inst/examples/ex01/exmodel_f_id_spatial_sample.raw
inst/examples/ex01/exmodel_f_id_spatial_var.res
inst/examples/ex01/exmodel_f_id_spatial_variance_sample.raw
inst/examples/ex01/exmodel_f_x_pspline.res
inst/examples/ex01/exmodel_f_x_pspline_lambda.res
inst/examples/ex01/exmodel_f_x_pspline_sample.raw
inst/examples/ex01/exmodel_f_x_pspline_var.res
inst/examples/ex01/exmodel_f_x_pspline_variance_sample.raw
inst/examples/ex01/exmodel_model_summary.tex
inst/examples/ex01/exmodel_predictmean.raw
inst/examples/ex01/exmodel_scale.res
inst/examples/ex01/exmodel_scale_sample.raw
inst/examples/ex02
inst/examples/ex02/nonparametric.raw
inst/examples/ex02/nonparametric2_f_time_pspline.res
inst/examples/ex02/nonparametric_f_x_pspline.res
inst/examples/ex02/nonparametric_f_x_pspline_sample.raw
inst/examples/ex02/surface.raw
inst/examples/ex02/surface_f_x1_x2_pspline.res
man
man/BeechBnd.Rd
man/BeechGra.Rd
man/DIC.Rd
man/FantasyBnd.Rd
man/ForestHealth.Rd
man/GAMart.Rd
man/GCV.Rd
man/GRstats.Rd
man/GermanyBnd.Rd
man/MunichBnd.Rd
man/R2BayesX-package.Rd
man/ZambiaBnd.Rd
man/ZambiaNutrition.Rd
man/add.neighbor.Rd
man/bayesx.Rd
man/bayesx.construct.Rd
man/bayesx.control.Rd
man/bayesx.term.options.Rd
man/bnd2gra.Rd
man/colorlegend.Rd
man/cprob.Rd
man/delete.neighbor.Rd
man/fitted.bayesx.Rd
man/get.neighbor.Rd
man/getscript.Rd
man/logfile.Rd
man/nbAndGraConversion.Rd
man/parse.bayesx.input.Rd
man/plot.bayesx.Rd
man/plot2d.Rd
man/plot3d.Rd
man/plotblock.Rd
man/plotmap.Rd
man/plotsamples.Rd
man/predict.bayesx.Rd
man/prgfile.Rd
man/read.bayesx.output.Rd
man/read.bnd.Rd
man/read.gra.Rd
man/runtime.Rd
man/samples.Rd
man/shp2bnd.Rd
man/sliceplot.Rd
man/spAndBndConversion.Rd
man/summary.bayesx.Rd
man/sx.Rd
man/term.freqs.Rd
man/write.bayesx.input.Rd
man/write.bnd.Rd
man/write.gra.Rd
src
src/bayesx.c
R2BayesX documentation built on May 21, 2017, 3:35 a.m.

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