SpatialEpi: Methods and Data for Spatial Epidemiology

Methods and data for cluster detection and disease mapping.

AuthorCici Chen [ctb], Albert Y. Kim [aut, cre], Michelle Ross [ctb], Jon Wakefield [aut]
Date of publication2016-01-29 01:02:40
MaintainerAlbert Y. Kim <albert@stat.washington.edu>
LicenseGPL-2
Version1.2.2

View on CRAN

Man pages

bayes_cluster: Bayesian Cluster Detection Method

besag_newell: Besag-Newell Cluster Detection Method

besag_newell_internal: Internal Besag Newell method

binomialLogLkhd: Compute Binomial Likelihoods

check_overlap: Check if proposed configurations overlap

circle: Compute cartesian coordinates of a cluster center and radius

clean_moves_matrix: Clean up proposed moves matrix

coeff: Compute log Bayes Factors

computeAllLogLkhd: Compute log likelihood for all single zones

create_geo_objects: Create geographical objects to be used in Bayesian Cluster...

eBayes: Empirical Bayes Estimates of Relative Risk

EBpostdens: Produce plots of emprical Bayes posterior densities when the...

EBpostthresh: Produce the probabilities of exceeding a threshold given a...

estimate_lambda: Estimate lambda values

expected: Compute Expected Numbers of Disease

GammaPriorCh: Compute Parameters to Calibrate a Gamma Distribution

grid2latlong: Convert Coordinates from Grid to Latitude/Longitude

kulldorff: Kulldorff Cluster Detection Method

kulldorffMC: Compute permutation distribution for kulldorff method

latlong2grid: Convert Coordinates from Latitude/Longitude to Grid

ldmultinom: log multinomial Density

ldnbinom: log Negative Binomial Density

LogNormalPriorCh: Compute Parameters to Calibrate a Log-normal Distribution

mapvariable: Plot Levels of a Variable in a Colour-Coded Map

MCMC_simulation: MCMC simulation to sample configurations

normalize: Normalize vector to sum to 1.

NumericVectorEquality: Test if two numeric vectors are equal

NYleukemia: Upstate New York Leukemia Data

pennLC: Pennsylvania Lung Cancer

plotmap: Plot Levels of a Variable in a Colour-Coded Map

poissonLogLkhd: Compute Poisson Likelihoods

polygon2spatial_polygon: Convert a Polygon to a Spatial Polygons Object

ProbSampleReplace: Draw a sample of size 1 given probabilities

process_MCMC_sample: Process MCMC Sample

return_birth_moves: Return all possible birth moves

return_death_moves: Return all death moves

return_local_moves: Return all possible local moves: growth, trim, recenter

scotland: Lip Cancer in Scotland

SpatialEpi-package: Methods and Data for Spatial Epidemiology

zones: Create set of all single zones and output geographical...

Files in this package

SpatialEpi
SpatialEpi/src
SpatialEpi/src/cluster_detection.cpp
SpatialEpi/src/RcppExports.cpp
SpatialEpi/src/bayes_cluster.cpp
SpatialEpi/NAMESPACE
SpatialEpi/data
SpatialEpi/data/pennLC.rda
SpatialEpi/data/scotland.rda
SpatialEpi/data/NYleukemia.rda
SpatialEpi/R
SpatialEpi/R/latlong2grid.R SpatialEpi/R/bayes_cluster.R SpatialEpi/R/create_geo_objects.R SpatialEpi/R/LogNormalPriorCh.R SpatialEpi/R/process_MCMC_sample.R SpatialEpi/R/GammaPriorCh.R SpatialEpi/R/circle.R SpatialEpi/R/grid2latlong.R SpatialEpi/R/polygon2spatial_polygon.R SpatialEpi/R/besag_newell.R SpatialEpi/R/zones.R SpatialEpi/R/RcppExports.R SpatialEpi/R/estimate_lambda.R SpatialEpi/R/EBpostdens.R SpatialEpi/R/EBpostthresh.R SpatialEpi/R/mapvariable.R SpatialEpi/R/eBayes.R SpatialEpi/R/kulldorff.R SpatialEpi/R/plotmap.R SpatialEpi/R/expected.R
SpatialEpi/README.md
SpatialEpi/MD5
SpatialEpi/DESCRIPTION
SpatialEpi/man
SpatialEpi/man/clean_moves_matrix.Rd SpatialEpi/man/besag_newell_internal.Rd SpatialEpi/man/poissonLogLkhd.Rd SpatialEpi/man/grid2latlong.Rd SpatialEpi/man/polygon2spatial_polygon.Rd SpatialEpi/man/bayes_cluster.Rd SpatialEpi/man/estimate_lambda.Rd SpatialEpi/man/coeff.Rd SpatialEpi/man/ProbSampleReplace.Rd SpatialEpi/man/kulldorff.Rd SpatialEpi/man/SpatialEpi-package.Rd SpatialEpi/man/mapvariable.Rd SpatialEpi/man/return_birth_moves.Rd SpatialEpi/man/zones.Rd SpatialEpi/man/ldmultinom.Rd SpatialEpi/man/NYleukemia.Rd SpatialEpi/man/eBayes.Rd SpatialEpi/man/besag_newell.Rd SpatialEpi/man/NumericVectorEquality.Rd SpatialEpi/man/process_MCMC_sample.Rd SpatialEpi/man/kulldorffMC.Rd SpatialEpi/man/check_overlap.Rd SpatialEpi/man/LogNormalPriorCh.Rd SpatialEpi/man/latlong2grid.Rd SpatialEpi/man/EBpostthresh.Rd SpatialEpi/man/create_geo_objects.Rd SpatialEpi/man/EBpostdens.Rd SpatialEpi/man/return_local_moves.Rd SpatialEpi/man/computeAllLogLkhd.Rd SpatialEpi/man/binomialLogLkhd.Rd SpatialEpi/man/plotmap.Rd SpatialEpi/man/ldnbinom.Rd SpatialEpi/man/expected.Rd SpatialEpi/man/MCMC_simulation.Rd SpatialEpi/man/return_death_moves.Rd SpatialEpi/man/normalize.Rd SpatialEpi/man/GammaPriorCh.Rd SpatialEpi/man/pennLC.Rd SpatialEpi/man/circle.Rd SpatialEpi/man/scotland.Rd

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