Package: RiskMap 0.1.0

Emanuele Giorgi

RiskMap: Geo-Statistical Modeling of Spatially Referenced Data

Provides functions for geo-statistical analysis of both continuous and count data using maximum likelihood methods. The models implemented in the package use stationary Gaussian processes with Matern correlation function to carry out spatial prediction in a geographical area of interest. The underpinning theory of the methods implemented in the package are found in Diggle and Giorgi (2019, ISBN: 978-1-138-06102-7).

Authors:Emanuele Giorgi [aut, cre], Claudio Fronterre [ctb]

RiskMap_0.1.0.tar.gz
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RiskMap.pdf |RiskMap.html
RiskMap/json (API)

# Install 'RiskMap' in R:
install.packages('RiskMap', repos = c('https://claudiofronterre.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/claudiofronterre/riskmap/issues

Datasets:
  • anopheles - Anopheles mosquitoes in Southern Cameroon
  • galicia - Heavy metal biomonitoring in Galicia
  • italy_sim - Simulated data-set on the Italian peninsula
  • liberia - River-blindness in Liberia
  • loaloa - Loa loa prevalence data from 197 village surveys
  • malkenya - Malaria Transmission in the Western Kenyan Highlands
  • malnutrition - Malnutrition in Ghana

On CRAN:

19 exports 1.22 score 47 dependencies 775 downloads

Last updated 3 months agofrom:d84042828e. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKAug 25 2024
R-4.5-winNOTEAug 25 2024
R-4.5-linuxNOTEAug 25 2024
R-4.4-winNOTEAug 25 2024
R-4.4-macNOTEAug 25 2024
R-4.3-winNOTEAug 25 2024
R-4.3-macNOTEAug 25 2024

Exports:create_griddist_summariesglgpmglgpm_simgpLaplace_sampling_MCMCmatern_cormatern.grad.phimatern.hessian.phimaxim.integrandplot_s_variogrampred_over_gridpred_target_gridpred_target_shppropose_utmres_variogramset_control_simto_table

Dependencies:classclassIntclicolorspaceDBIdigeste1071fansifarvergenericsggplot2gluegtableisobandKernSmoothlabelinglatticelifecyclemagrittrMASSMatrixmaxLikmgcvmiscToolsmunsellnlmepillarpkgconfigproxyR6RColorBrewerRcpprlangs2sandwichscalessfterratibbleunitsutf8vctrsviridisLitewithrwkxtablezoo

Readme and manuals

Help Manual

Help pageTopics
Anopheles mosquitoes in Southern Cameroonanopheles
Extract Parameter Estimates from a "RiskMap" Model Fitcoef.RiskMap
Create Grid of Points Within Shapefilecreate_grid
Summaries of the distancesdist_summaries
Heavy metal biomonitoring in Galiciagalicia
Estimation of Generalized Linear Gaussian Process Modelsglgpm
Simulation from Generalized Linear Gaussian Process Modelsglgpm_sim
Gaussian Process Model Specificationgp
Simulated data-set on the Italian peninsulaitaly_sim
Laplace Sampling Markov Chain Monte Carlo (MCMC) for Generalized Linear Gaussian Process ModelsLaplace_sampling_MCMC
River-blindness in Liberialiberia
Loa loa prevalence data from 197 village surveysloaloa
Malaria Transmission in the Western Kenyan Highlandsmalkenya
Malnutrition in Ghanamalnutrition
Matern Correlation Functionmatern_cor
First Derivative with Respect to phimatern.grad.phi
Second Derivative with Respect to phimatern.hessian.phi
Maximization of the Integrand for Generalized Linear Gaussian Process Modelsmaxim.integrand
Plotting the empirical variogramplot_s_variogram
Plot Method for RiskMap_pred_target_grid Objectsplot.RiskMap_pred_target_grid
Plot Method for RiskMap_pred_target_shp Objectsplot.RiskMap_pred_target_shp
Prediction of the random effects components and covariates effects over a spatial grid using a fitted generalized linear Gaussian process modelpred_over_grid
Predictive Target Over a Regular Spatial Gridpred_target_grid
Predictive Target over a Shapefilepred_target_shp
Print Summary of RiskMap Modelprint.summary.RiskMap
EPSG of the UTM Zonepropose_utm
Random Effect Model Specificationre
Empirical variograms_variogram
Set Control Parameters for Simulationset_control_sim
Summarize Model Fitssummary.RiskMap
Create LaTeX Table from Model Fitto_table