geoCount: Analysis and Modeling for Geostatistical Count Data
Version 1.150120

This package provides a variety of functions to analyze and model geostatistical count data with generalized linear spatial models, including 1) simulate and visualize the data; 2) posterior sampling with robust MCMC algorithms (in serial or parallel way); 3) perform prediction for unsampled locations; 4) conduct Bayesian model checking procedure to evaluate the goodness of fitting; 5) conduct transformed residual checking procedure. In the package, seamlessly embedded C++ programs and parallel computing techniques are implemented to speed up the computing processes.

Browse man pages Browse package API and functions Browse package files

AuthorLiang Jing
Date of publication2015-01-27 08:12:07
MaintainerLiang Jing <ljing918@gmail.com>
LicenseGPL (>= 2)
Version1.150120
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("geoCount")

Man pages

baseline.dist: Generate Distance Samples to Build Baseline Distribution
BMCT: Perform Bayesian Model Checking
cdfU: Approximate the CDF Value from Reference Samples
cutChain: Modify Markov Chains with Burn-in and Thining
d.base: Data Set of Baseline Samples
e2dist: Calculate Distances between Transformed Residuals and...
Earthquakes: Data Set of Earthquakes
findMode: Estimate Mode of the Posterior Samples
helloWorld: Hello
loc2U: Calculate the Distance Matrix among Given Locations
loc2U_R: Calculate the Distance Matrix among Given Locations
locCircle: Simulate Circlular Locations
locGrid: Simulate Locations on Grid
locSquad: Simulate Squared Locations
locUloc: Calculate the Distance Matrix Between Observed and Predicting...
locUloc_R: Calculate the Distance Matrix Between Observed and Predicting...
MCMCinput: Settings for the MCMC Algorithm
mixChain: Mix Parallel Markov Chains
plotACF: Auto-correlation Plot for Latent Variables
plot_baseline: Plot Baseline Samples
plotData: Plot Geostatistical Data
plot_etran: Plot Transformed Residuals
plot_pRPS: Plot Observed vs. Reference Diagnostic Statistics
plotTexas: Plot Texas Counties
pOne: Calculate One-side P-value
predY: Predict for Unsampled Locations
pRPS: Calculate P-value and RPS
repYeb: Generate Replicated Data with Estimated Parameters
repYpost: Generate Replicated Data with Posterior Samples of Latent...
Rhizoc: Rhizoc Data
rhoMatern: Matern Correlation Function
rhoPowerExp: Powered Exponential Correlation Function
rhoSph: Spherical Correlation Function
Rongelap: Data Set of Rongelap Island
runMCMC: Perform Robust MCMC Algorithms for GLSM
runMCMC_: Internal Function for Robust MCMC Algorithms
runMCMCpartialPois_: Internal Function for Robust MCMC Algorithms with Partial...
runMCMC.sf: Perform Robust MCMC Algorithms for GLSM in Parallel
simData: Simulate Data Set from Generalized Linear Spatial Model on...
TexasCounty.boundary: Data Set of Texas County Boundries
TexasCounty.center: Data Set of Texas County Centers
TexasCounty.population: Data Set of Texas County Population
tranR: Calculate Transformed Residuals for Observed Data
U2Z: Convert Distance Matrix to Correlation Matrix
unifLoc: Scale Locations into A Unit Square
Weed: Weed Data

Functions

BMCT Man page Source code
Earthquakes Man page
MCMCinput Man page Source code
Rhizoc Man page
Rongelap Man page
TexasCounty.boundary Man page
TexasCounty.center Man page
TexasCounty.population Man page
U2Z Man page Source code
Weed Man page
baseline.dist Man page Source code
cdfU Man page Source code
cutChain Man page Source code
d.base Man page
e2dist Man page Source code
findMode Man page Source code
helloWorld Man page Source code
loc2U Man page Source code
loc2U_R Man page Source code
locCircle Man page Source code
locGrid Man page Source code
locSquad Man page Source code
locUloc Man page Source code
locUloc_R Man page Source code
mixChain Man page Source code
pOne Man page Source code
pRPS Man page Source code
plotACF Man page Source code
plotData Man page Source code
plotTexas Man page Source code
plot_baseline Man page Source code
plot_etran Man page Source code
plot_pRPS Man page Source code
predY Man page Source code
repYeb Man page Source code
repYpost Man page Source code
rhoMatern Man page Source code
rhoPowerExp Man page Source code
rhoSph Man page Source code
runMCMC Man page Source code
runMCMC.sf Man page Source code
runMCMC_ Man page Source code
runMCMCpartialPois_ Man page Source code
simData Man page Source code
tranR Man page Source code
unifLoc Man page Source code

Files

inst
inst/CITATION
inst/doc
inst/doc/geoCount_HowtoUse.pdf
inst/doc/geoCount_HowtoUse.R
src
src/runMCMCfunc.cpp
src/Makevars
src/helloWorld.cpp
src/runMCMC.h
src/runMCMCBP.cpp
src/loc2U.cpp
src/Makevars.win
src/runMCMCpartialPois.cpp
NAMESPACE
data
data/TexasCounty_center.RData
data/Rhizoc.RData
data/TexasCounty_boundary.RData
data/Weed.RData
data/datalist
data/Earthquake.RData
data/Rongelap.RData
data/Dbase_n100N5000.RData
data/TexasCounty_population.RData
R
R/postMCMC.R
R/helloWorld.R
R/locUZ.R
R/simData.R
R/checkingBMC.R
R/checkingTRC.R
R/plotData.R
R/runMCMC.R
MD5
DESCRIPTION
man
man/predY.Rd
man/findMode.Rd
man/plot_pRPS.Rd
man/plotACF.Rd
man/unifLoc.Rd
man/d.base.Rd
man/pRPS.Rd
man/runMCMCpartialPois_.Rd
man/e2dist.Rd
man/Weed.Rd
man/TexasCounty.population.Rd
man/U2Z.Rd
man/runMCMC_.Rd
man/MCMCinput.Rd
man/tranR.Rd
man/locSquad.Rd
man/locUloc.Rd
man/locGrid.Rd
man/TexasCounty.boundary.Rd
man/plot_etran.Rd
man/TexasCounty.center.Rd
man/Earthquakes.Rd
man/helloWorld.Rd
man/cutChain.Rd
man/baseline.dist.Rd
man/pOne.Rd
man/runMCMC.Rd
man/plot_baseline.Rd
man/BMCT.Rd
man/repYpost.Rd
man/locCircle.Rd
man/rhoMatern.Rd
man/repYeb.Rd
man/loc2U.Rd
man/simData.Rd
man/loc2U_R.Rd
man/locUloc_R.Rd
man/cdfU.Rd
man/plotTexas.Rd
man/mixChain.Rd
man/Rhizoc.Rd
man/runMCMC.sf.Rd
man/plotData.Rd
man/rhoPowerExp.Rd
man/Rongelap.Rd
man/rhoSph.Rd
geoCount documentation built on May 19, 2017, 12:54 p.m.