spatPomp-package | Inference for SpatPOMPs (Spatiotemporal Partially Observed Markov Processes) |
abf | Adapted Bagged Filter (ABF) |
abf-abfd_spatPomp | Adapted Bagged Filter (ABF) |
abf-method | Adapted Bagged Filter (ABF) |
abf-spatPomp | Adapted Bagged Filter (ABF) |
abfir | Adapted Bagged Filter with Intermediate Resampling (ABF-IR) |
abfir-abfird_spatPomp | Adapted Bagged Filter with Intermediate Resampling (ABF-IR) |
abfir-method | Adapted Bagged Filter with Intermediate Resampling (ABF-IR) |
abfir-spatPomp | Adapted Bagged Filter with Intermediate Resampling (ABF-IR) |
arma_benchmark | Calculated log-ARMA log-likelihood benchmark for spatPomp models |
as.data.frame | Coerce to data frame |
as.data.frame.spatPomp | Coerce to data frame |
bm | Brownian motion spatPomp simulator |
bm2 | Brownian motion spatPomp generator with shared or unit-specific parameters |
bm2_kalman_logLik | Exact log-likelihood for Brownian motion spatPomp generator with shared or unit-specific parameters |
bm_kalman_logLik | Exact log-likelihood for Brownian motion spatPomp generator |
bpfilter | Block particle filter (BPF) |
bpfilter-ANY | Block particle filter (BPF) |
bpfilter-bpfilterd_spatPomp | Block particle filter (BPF) |
bpfilter-method | Block particle filter (BPF) |
bpfilter-missing | Block particle filter (BPF) |
bpfilter-spatPomp | Block particle filter (BPF) |
c | Concatenate |
c.SpatPomp | Concatenate |
city_data_UK | City data in the United Kingdom |
coerce-method | Coerce to data frame |
concat | Concatenate |
contract_params | Book-keeping functions for working with expanded parameters |
contract_params, | Book-keeping functions for working with expanded parameters |
dunit_measure | dunit_measure 'dunit_measure' evaluates the unit measurement density of a unit's observation given the entire state |
dunit_measure-method | dunit_measure 'dunit_measure' evaluates the unit measurement density of a unit's observation given the entire state |
dunit_measure-spatPomp | dunit_measure 'dunit_measure' evaluates the unit measurement density of a unit's observation given the entire state |
enkf | Generalized Ensemble Kalman filter (EnKF) |
enkf-method | Generalized Ensemble Kalman filter (EnKF) |
enkf-spatPomp | Generalized Ensemble Kalman filter (EnKF) |
eunit_measure | Expectation of the measurement model for one unit |
eunit_measure-method | Expectation of the measurement model for one unit |
eunit_measure-spatPomp | Expectation of the measurement model for one unit |
expand_params | Book-keeping functions for working with expanded parameters |
expand_params, | Book-keeping functions for working with expanded parameters |
gbm | Geometric Brownian motion spatPomp simulator |
girf | Guided intermediate resampling filter (GIRF) |
girf-ANY | Guided intermediate resampling filter (GIRF) |
girf-girfd_spatPomp | Guided intermediate resampling filter (GIRF) |
girf-method | Guided intermediate resampling filter (GIRF) |
girf-missing | Guided intermediate resampling filter (GIRF) |
girf-spatPomp | Guided intermediate resampling filter (GIRF) |
he10 | Measles in UK: spatPomp generator with shared or unit-specific parameters |
he10coordinates | City data in the United Kingdom |
he10demography | Demographic data for 20 towns in the United Kingdom |
he10measles | Measles in the United Kingdom |
he10mle | Measles in the United Kingdom: MLE from He et al (2010) |
ibpf | Iterated block particle filter (IBPF) |
ibpf-ANY | Iterated block particle filter (IBPF) |
ibpf-bpfd_spatPomp | Iterated block particle filter (IBPF) |
ibpf-ibpfd_spatPomp | Iterated block particle filter (IBPF) |
ibpf-method | Iterated block particle filter (IBPF) |
ibpf-missing | Iterated block particle filter (IBPF) |
ibpf-spatPomp | Iterated block particle filter (IBPF) |
ienkf | Iterated ensemble Kalman filter (IEnKF) |
ienkf-method | Iterated ensemble Kalman filter (IEnKF) |
ienkf-spatPomp | Iterated ensemble Kalman filter (IEnKF) |
igirf | Iterated guided intermediate resampling filter (IGIRF) |
igirf-ANY | Iterated guided intermediate resampling filter (IGIRF) |
igirf-igirfd_spatPomp | Iterated guided intermediate resampling filter (IGIRF) |
igirf-method | Iterated guided intermediate resampling filter (IGIRF) |
igirf-missing | Iterated guided intermediate resampling filter (IGIRF) |
igirf-spatPomp | Iterated guided intermediate resampling filter (IGIRF) |
iubf | Iterated Unadapted Bagged Filter (IUBF) |
iubf-method | Iterated Unadapted Bagged Filter (IUBF) |
iubf-spatPomp | Iterated Unadapted Bagged Filter (IUBF) |
logLik | Log likelihood extractor |
logLik-abfd_spatPomp | Log likelihood extractor |
logLik-abfird_spatPomp | Log likelihood extractor |
logLik-bpfilterd_spatPomp | Log likelihood extractor |
logLik-girfd_spatPomp | Log likelihood extractor |
logLik-igirfd_spatPomp | Log likelihood extractor |
logLik-iubfd_spatPomp | Log likelihood extractor |
logLik-method | Log likelihood extractor |
lorenz | Lorenz '96 spatPomp constructor |
lorenz96 | Lorenz '96 spatPomp constructor |
mean_by_unit | Book-keeping functions for working with expanded parameters |
mean_by_unit, | Book-keeping functions for working with expanded parameters |
measles | Measles in UK spatPomp generator |
measles2 | Measles in UK: spatPomp generator with shared or unit-specific parameters |
measlesUK | Measles in the United Kingdom |
munit_measure | Matching moments for the unit measurement model |
munit_measure-method | Matching moments for the unit measurement model |
munit_measure-spatPomp | Matching moments for the unit measurement model |
param_formats | Book-keeping functions for working with expanded parameters |
plot | Plot methods for 'spatPomp' objects |
plot-igirfd_spatPomp | Plot methods for 'spatPomp' objects |
plot-method | Plot methods for 'spatPomp' objects |
plot-spatPomp | Plot methods for 'spatPomp' objects |
Print methods | |
print-method | Print methods |
print-spatPomp | Print methods |
runit_measure | Random draw from the measurement model for one unit |
runit_measure-method | Random draw from the measurement model for one unit |
runit_measure-spatPomp | Random draw from the measurement model for one unit |
simulate | Simulation of a spatiotemporal partially-observed Markov process |
simulate-method | Simulation of a spatiotemporal partially-observed Markov process |
simulate-spatPomp | Simulation of a spatiotemporal partially-observed Markov process |
spatPomp | Constructor of the spatPomp object |
spatPomp-class | An S4 class to represent a spatiotemporal POMP model and data. |
spatPomp_Csnippet | C snippets |
spatPomp_Csnippet-character | C snippets |
spatPomp_Csnippet-method | C snippets |
unit_names | Unit names of a spatiotemporal model |
unit_names-method | Unit names of a spatiotemporal model |
unit_names-spatPomp | Unit names of a spatiotemporal model |
vec_dmeasure | Vector of unit measurement densities for each unit |
vec_dmeasure-method | Vector of unit measurement densities for each unit |
vec_dmeasure-spatPomp | Vector of unit measurement densities for each unit |
vec_rmeasure | Vector simulating measurements for each unit using 'runit_measure' |
vec_rmeasure-method | Vector simulating measurements for each unit using 'runit_measure' |
vec_rmeasure-spatPomp | Vector simulating measurements for each unit using 'runit_measure' |
vunit_measure | Conditional variance of the measurement on a single unit |
vunit_measure-method | Conditional variance of the measurement on a single unit |
vunit_measure-spatPomp | Conditional variance of the measurement on a single unit |