geoCount: Analysis and Modeling for Geostatistical Count Data

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.

Author
Liang Jing
Date of publication
2015-01-27 08:12:07
Maintainer
Liang Jing <ljing918@gmail.com>
License
GPL (>= 2)
Version
1.150120

View on CRAN

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

Files in this package

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