IDSpatialStats: Estimate Global Clustering in Infectious Disease

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Implements various novel and standard clustering statistics and other analyses useful for understanding the spread of infectious disease.

Author
Justin Lessler <justin@jhu.edu>, Henrik Salje <hsalje@jhsph.edu>
Date of publication
2016-09-20 00:59:43
Maintainer
Justin Lessler <justin@jhu.edu>
License
GPL (>= 2)
Version
0.2.2

View on CRAN

Man pages

DengueSimR01
Simulated dataset of dengue transmission with basic...
DengueSimR02
Simulated dataset of dengue cases with basic reproductive...
DengueSimRepresentative
Simulated dataset of dengue cases with representative...
get.pi
Generalized version of 'get.pi'
get.pi.bootstrap
Bootstrap 'get.pi' values.
get.pi.ci
Calculate bootstrapped confidence intervals for 'get.pi'...
get.pi.permute
get the null distribution of the 'get.pi' function
get.pi.typed
Optimized version of 'get.pi' for typed data.
get.pi.typed.bootstrap
runs bootstrapping on 'get.pi.typed'
get.pi.typed.permute
get the null distribution of the get.pi.typed function
get.tau
generalized version of 'get.tau'
get.tau.bootstrap
Bootstrap 'get.tau' values.
get.tau.ci
Bootstrap confidence interval for the 'get.tau' values
get.tau.permute
get the null distribution of the 'get.tau' function
get.tau.typed
Optimizewd version of 'get.tau' for typed data
get.tau.typed.bootstrap
runs bootstrapping for 'get.tau.typed'
get.tau.typed.permute
get the null distribution for the 'get.tau.typed' function
get.theta
Generalized version of 'get.theta'
get.theta.bootstrap
Bootstrap 'get.theta' values.
get.theta.ci
Calculate bootstrapped confidence intervals for 'get.theta'...
get.theta.permute
get the null distribution of the 'get.theta' function
get.theta.typed
Optimized version of 'get.theta' for typed data.
get.theta.typed.bootstrap
runs bootstrapping on 'get.theta.typed'
get.theta.typed.permute
get the null distribution of the get.theta.typed function

Files in this package

IDSpatialStats
IDSpatialStats/inst
IDSpatialStats/inst/tests
IDSpatialStats/inst/tests/test-gettaupermute.r
IDSpatialStats/inst/tests/test-getthetabootstrap.r
IDSpatialStats/inst/tests/test-gettaubootstrap.r
IDSpatialStats/inst/tests/test-gettheta.r
IDSpatialStats/inst/tests/test-getpibootstrap.r
IDSpatialStats/inst/tests/test-getpi.r
IDSpatialStats/inst/tests/test-gettau.r
IDSpatialStats/inst/tests/test-getpipermute.r
IDSpatialStats/inst/tests/test-getthetapermute.r
IDSpatialStats/src
IDSpatialStats/src/spatialfuncs.c
IDSpatialStats/NAMESPACE
IDSpatialStats/data
IDSpatialStats/data/DengueSimRepresentative.RData
IDSpatialStats/data/DengueSimulationR01.RData
IDSpatialStats/data/DengueSimulationR02.RData
IDSpatialStats/R
IDSpatialStats/R/spatialfuncs.r
IDSpatialStats/R/examples
IDSpatialStats/R/examples/get_tau_bootstrap.R
IDSpatialStats/R/examples/get_tau_ci.R
IDSpatialStats/R/examples/get_pi_bootstrap.R
IDSpatialStats/R/examples/get_tau.R
IDSpatialStats/R/examples/get_theta_ci.R
IDSpatialStats/R/examples/get_theta_typed_permute.R
IDSpatialStats/R/examples/get_tau_permute.R
IDSpatialStats/R/examples/get_pi_typed_permute.R
IDSpatialStats/R/examples/get_theta_bootstrap.R
IDSpatialStats/R/examples/get_theta_permute.R
IDSpatialStats/R/examples/get_theta_typed.R
IDSpatialStats/R/examples/get_pi_permute.R
IDSpatialStats/R/examples/get_theta.R
IDSpatialStats/R/examples/get_tau_typed.R
IDSpatialStats/R/examples/get_pi.R
IDSpatialStats/R/examples/get_theta_typed_bootstrap.R
IDSpatialStats/R/examples/get_pi_ci.R
IDSpatialStats/R/examples/get_tau_typed_bootstrap.R
IDSpatialStats/R/examples/get_tau_typed_permute.R
IDSpatialStats/R/examples/get_pi_typed.R
IDSpatialStats/R/examples/get_pi_typed_bootstrap.R
IDSpatialStats/MD5
IDSpatialStats/DESCRIPTION
IDSpatialStats/man
IDSpatialStats/man/get.pi.ci.Rd
IDSpatialStats/man/get.theta.typed.permute.Rd
IDSpatialStats/man/get.theta.permute.Rd
IDSpatialStats/man/get.tau.Rd
IDSpatialStats/man/get.theta.Rd
IDSpatialStats/man/get.tau.bootstrap.Rd
IDSpatialStats/man/get.tau.permute.Rd
IDSpatialStats/man/get.theta.typed.bootstrap.Rd
IDSpatialStats/man/get.theta.ci.Rd
IDSpatialStats/man/get.theta.typed.Rd
IDSpatialStats/man/get.tau.typed.permute.Rd
IDSpatialStats/man/DengueSimRepresentative.Rd
IDSpatialStats/man/get.pi.permute.Rd
IDSpatialStats/man/get.tau.typed.bootstrap.Rd
IDSpatialStats/man/get.tau.typed.Rd
IDSpatialStats/man/get.pi.Rd
IDSpatialStats/man/get.tau.ci.Rd
IDSpatialStats/man/get.pi.typed.bootstrap.Rd
IDSpatialStats/man/get.pi.typed.Rd
IDSpatialStats/man/DengueSimR02.Rd
IDSpatialStats/man/get.pi.typed.permute.Rd
IDSpatialStats/man/get.pi.bootstrap.Rd
IDSpatialStats/man/get.theta.bootstrap.Rd
IDSpatialStats/man/DengueSimR01.Rd