Files in drizopoulos/JMbayes2
Extended Joint Models for Longitudinal and Time-to-Event Data

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DESCRIPTION

Development/C functions/add_zero_colrows.cpp

Development/C functions/zero_D.cpp

Development/CI/causal_effects.R Development/CI/causal_effects_fun.R Development/CI/causal_effects_timeRelative.R Development/CI/data_pred.R

Development/CI/model.RData

Development/CI/prepare_data.R Development/CI/run_models.R

Development/DESCRIPTION

Development/Dev_Local_GP/Cpp_funs/Xbetas_calc.R

Development/Dev_Local_GP/Cpp_funs/Xbetas_calc.cpp

Development/Dev_Local_GP/Cpp_funs/arma_logmat.R

Development/Dev_Local_GP/Cpp_funs/arma_logmat.cpp

Development/Dev_Local_GP/Cpp_funs/bench_rnorm.R

Development/Dev_Local_GP/Cpp_funs/bench_rnorm.RData

Development/Dev_Local_GP/Cpp_funs/chol_cube_S.cpp

Development/Dev_Local_GP/Cpp_funs/choleach.cpp

Development/Dev_Local_GP/Cpp_funs/choleeachfor.R

Development/Dev_Local_GP/Cpp_funs/cholfor.cpp

Development/Dev_Local_GP/Cpp_funs/create_fast_ind.cpp

Development/Dev_Local_GP/Cpp_funs/cube_res_meansb.cpp

Development/Dev_Local_GP/Cpp_funs/cubeacces.R

Development/Dev_Local_GP/Cpp_funs/cubeacces.cpp

Development/Dev_Local_GP/Cpp_funs/cubeacces_check.R Development/Dev_Local_GP/Cpp_funs/docall_cbind.R

Development/Dev_Local_GP/Cpp_funs/docall_cbind.cpp

Development/Dev_Local_GP/Cpp_funs/docall_cbindF.cpp

Development/Dev_Local_GP/Cpp_funs/field_void.R

Development/Dev_Local_GP/Cpp_funs/field_void.cpp

Development/Dev_Local_GP/Cpp_funs/idL_lp_fast.R

Development/Dev_Local_GP/Cpp_funs/idL_lp_fast.cpp

Development/Dev_Local_GP/Cpp_funs/insertslices.cpp

Development/Dev_Local_GP/Cpp_funs/insertslices_2.cpp

Development/Dev_Local_GP/Cpp_funs/insertslices_3.cpp

Development/Dev_Local_GP/Cpp_funs/insertslices_bench.R Development/Dev_Local_GP/Cpp_funs/iter_mean/dim_r_example.R

Development/Dev_Local_GP/Cpp_funs/iter_mean/foo_outer.cpp

Development/Dev_Local_GP/Cpp_funs/iter_mean/test.R

Development/Dev_Local_GP/Cpp_funs/iter_mean/test_basic.cpp

Development/Dev_Local_GP/Cpp_funs/iter_mean/test_iter.cpp

Development/Dev_Local_GP/Cpp_funs/jm_fit_manual.R

Development/Dev_Local_GP/Cpp_funs/kronmat.cpp

Development/Dev_Local_GP/Cpp_funs/kronmat2.cpp

Development/Dev_Local_GP/Cpp_funs/linpred_loglong_convNA.cpp

Development/Dev_Local_GP/Cpp_funs/linpred_loglong_convNA_eta.cpp

Development/Dev_Local_GP/Cpp_funs/linpredmixed.R

Development/Dev_Local_GP/Cpp_funs/linpredmixed.cpp

Development/Dev_Local_GP/Cpp_funs/log_b_test.cpp

Development/Dev_Local_GP/Cpp_funs/log_b_test_2.R

Development/Dev_Local_GP/Cpp_funs/log_b_test_2.cpp

Development/Dev_Local_GP/Cpp_funs/log_long.cpp

Development/Dev_Local_GP/Cpp_funs/log_u.R

Development/Dev_Local_GP/Cpp_funs/log_u.cpp

Development/Dev_Local_GP/Cpp_funs/mat_division.R

Development/Dev_Local_GP/Cpp_funs/mat_division.cpp

Development/Dev_Local_GP/Cpp_funs/mat_to_field.cpp

Development/Dev_Local_GP/Cpp_funs/mattofield.R Development/Dev_Local_GP/Cpp_funs/propose_rnorm.R

Development/Dev_Local_GP/Cpp_funs/propose_rnorm.RData

Development/Dev_Local_GP/Cpp_funs/propose_rnorm.cpp

Development/Dev_Local_GP/Cpp_funs/propose_rnorm_2.cpp

Development/Dev_Local_GP/Cpp_funs/propose_rnorm_3.cpp

Development/Dev_Local_GP/Cpp_funs/rnorm2_R.cpp

Development/Dev_Local_GP/Cpp_funs/rnorm3_R.cpp

Development/Dev_Local_GP/Cpp_funs/rnorm_R.cpp

Development/Dev_Local_GP/Cpp_funs/source_funs.cpp

Development/Dev_Local_GP/Cpp_funs/test_if_for_scope.R

Development/Dev_Local_GP/Cpp_funs/test_if_for_scope.cpp

Development/Dev_Local_GP/Cpp_funs/test_voidinvoid.R

Development/Dev_Local_GP/Cpp_funs/update_b_draft.cpp

Development/Dev_Local_GP/Cpp_funs/voidinvoid.cpp

Development/Dev_Local_GP/Eta_with_NAs/create_eta.cpp

Development/Dev_Local_GP/Eta_with_NAs/eta_check.cpp

Development/Dev_Local_GP/Eta_with_NAs/eta_solution.R

Development/Dev_Local_GP/Eta_with_NAs/field_3d.cpp

Development/Dev_Local_GP/Eta_with_NAs/jm_manual_eta.R

Development/Dev_Local_GP/Eta_with_NAs/jm_manual_eta_env_to_jmfit.RData

Development/Dev_Local_GP/Eta_with_NAs/jmfit_manual_eta.R

Development/Dev_Local_GP/Eta_with_NAs/passed_to_cpp.RData

Development/Dev_Local_GP/Eta_with_NAs/reprod_example_eta.R Development/Dev_Local_GP/MS_CR/Competing_Risks_Reproduce.R Development/Dev_Local_GP/MS_CR/Multi_State_Processes_old.Rmd

Development/Dev_Local_GP/MS_CR/Multi_State_Processes_old.html

Development/Dev_Local_GP/MS_CR/count_proc_prep.R Development/Dev_Local_GP/MS_CR/implementation_example_v001.R

Development/Dev_Local_GP/MS_CR/implementation_example_v001.RData

Development/Dev_Local_GP/MS_CR/prepdat.R Development/Dev_Local_GP/MS_CR/sim_ms_basic.R Development/Dev_Local_GP/MS_CR/simdata_ms_vignette.R

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Development/Dev_Local_GP/debug_saveRE/fix_b_manually.R Development/Dev_Local_GP/debug_saveRE/jm_fit_manually.R Development/Dev_Local_GP/debug_saveRE/jm_manually.R

Development/Dev_Local_GP/update/draft_env.RData

Development/Dev_Local_GP/update/draft_extract_inits.R Development/Dev_Local_GP/update/draft_fit.R

Development/Dev_Local_GP/update/example_inits.RData

Development/Dev_Local_GP/update/jm_manual.R Development/Dev_Local_GP/update/jmfit_manual.R

Development/Dev_Local_GP/update/pass_to_jmfit.RData

Development/Dev_Local_GP/update/update_draft.R

Development/Dev_Local_GP/update/update_new/chck_burnin.cpp

Development/Function_Inputs_R_to_Cpp/Objects_doc.RData

Development/Function_Inputs_R_to_Cpp/Objects_doc_Data.RData

Development/Function_Inputs_R_to_Cpp/calculate_u/calculate_u.RData

Development/Function_Inputs_R_to_Cpp/init_surv.RData

Development/Function_Inputs_R_to_Cpp/init_vals_surv.RData

Development/MCMC/D/D_examples.R

Development/MCMC/D/sample_D.stan

Development/MCMC/D/sampling_D_Funs.R Development/MCMC/D/sampling_D_matrix.R Development/MCMC/D/sampling_D_matrix_GP.R Development/MCMC/D/sampling_D_optimized.R

Development/MCMC/MCMCplan

Development/MCMC/Surv_Model/C++/List_of_Lists.cpp

Development/MCMC/Surv_Model/C++/Wlong.R

Development/MCMC/Surv_Model/C++/Wlong.cpp

Development/MCMC/Surv_Model/C++/censored_normal.cpp

Development/MCMC/Surv_Model/C++/char.cpp

Development/MCMC/Surv_Model/C++/create_Wlong.cpp

Development/MCMC/Surv_Model/C++/group_sum2.cpp

Development/MCMC/Surv_Model/C++/log_long.cpp

Development/MCMC/Surv_Model/C++/mcmc.cpp

Development/MCMC/Surv_Model/C++/mcmc_block.cpp

Development/MCMC/Surv_Model/C++/mcmc_fit_surv.R Development/MCMC/Surv_Model/C++/mcmc_prep.R

Development/MCMC/Surv_Model/C++/rmvnorm.cpp

Development/MCMC/Surv_Model/C++/ss_sigmas.R

Development/MCMC/Surv_Model/C++/ss_sigmas.cpp

Development/MCMC/Surv_Model/C++/test_Wlong.R Development/MCMC/Surv_Model/C++/test_logLong.R Development/MCMC/Surv_Model/examples.R Development/MCMC/Surv_Model/fast_log_Surv.R

Development/MCMC/Surv_Model/logLik_surv.cpp

Development/MCMC/Surv_Model/prepare_test_fast_log_surv.R Development/MCMC/Surv_Model/sample_Surv.R Development/MCMC/Surv_Model/sample_Surv_Funs.R Development/MCMC/Surv_Model/simulate.R Development/MCMC/Surv_Model/simulate_fast.R Development/MCMC/b/examples.R Development/MCMC/b/examples_2.R Development/MCMC/b/sample_b_FUNS.R Development/MCMC/b/sampling_REs.R Development/MCMC/betas/D_inv_test.R

Development/MCMC/betas/D_inv_test.cpp

Development/MCMC/betas/R and C functions/add_zero_colrows.cpp

Development/MCMC/betas/R and C functions/create_HC_X3.R Development/MCMC/betas/R and C functions/create_X_dot.Rmd Development/MCMC/betas/R and C functions/create_X_dot3.R

Development/MCMC/betas/R and C functions/docall_rbindF.cpp

Development/MCMC/betas/R and C functions/inv_cholupdate.cpp

Development/MCMC/betas/R and C functions/propose_mvnorm_vec.cpp

Development/MCMC/betas/jm_int.R Development/MCMC/betas/test_Gibbs.R Development/MCMC/betas/test_MH.R Development/MCMC/betas/test_both.R

Development/MCMC/betas/update_FE_Gibbs.cpp

Development/MCMC/betas/update_FE_MH.cpp

Development/MCMC/betas/update_FE_both.cpp

Development/MCMC/betas/update_betasC.cpp

Development/MCMC/betas/update_betasR.R Development/MCMC/betas/update_betas_C_vs_R.R Development/MCMC/sampling_betas.R Development/MCMC/simulate_test.R Development/SuperLearning/pred_accuracy.R Development/SuperLearning/split_in_folds.R Development/jm/PBC_data.R Development/jm/R_to_Cpp.R Development/jm/extract_frames/extractFrames_new.R Development/jm/extract_frames/most possible models.R Development/jm/help_functions.R

Development/jm/mean_u.cpp

Development/jm/sample_case.R Development/jm/sample_case_same_as_test_jm.R Development/jm/test_jm.R Development/package_native_routine_registration_skeleton.R

Development/predict/JMbayes2_Funs.h

Development/predict/JMbayes2_LogDens.h

Development/predict/predict.R Development/predict/predict_Funs.R

Development/predict/simulate_REs.cpp

Development/sample_b.R Development/test_betas.R

NAMESPACE

NEWS.md R/RcppExports.R R/accuracy_measures.R R/basic_methods.R R/create_Wlong_mats.R R/help_functions.R R/jm.R R/jm_fit.R R/predict_funs.R README.Rmd README.md

_pkgdown.yml

data/aids.id.rda

data/aids.rda

data/pbc2.id.rda

data/pbc2.rda

data/prothro.rda

data/prothros.rda

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src/JMbayes2_D.h

src/JMbayes2_FE.h

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src/JMbayes2_LogDens.h

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vignettes/Causal_Effects.Rmd vignettes/Competing_Risks.Rmd vignettes/Dynamic_Predictions.Rmd vignettes/JMbayes2.Rmd vignettes/Multi_State_Processes.Rmd vignettes/Non_Gaussian_Mixed_Models.Rmd vignettes/Recurring_Events.Rmd vignettes/Super_Learning.Rmd vignettes/Time_Varying_Effects.Rmd vignettes/Transformation_Functions.Rmd

drizopoulos/JMbayes2 documentation built on April 15, 2024, 3:44 a.m.

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drizopoulos/JMbayes2
Extended Joint Models for Longitudinal and Time-to-Event Data

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Extended Joint Models for Longitudinal and Time-to-Event Data

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