Other packages > Find by keyword >

baker  

"Nested Partially Latent Class Models"
View on CRAN: Click here


Download and install baker package within the R console
Install from CRAN:
install.packages("baker")

Install from Github:
library("remotes")
install_github("cran/baker")

Install by package version:
library("remotes")
install_version("baker", "1.0.3")



Attach the package and use:
library("baker")
Maintained by
Zhenke Wu
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2022-02-02
Latest Update: 2024-01-30
Description:
Provides functions to specify, fit and visualize nested partially-latent class models ( Wu, Deloria-Knoll, Hammitt, and Zeger (2016) ; Wu, Deloria-Knoll, and Zeger (2017) ; Wu and Chen (2021) ) for inference of population disease etiology and individual diagnosis. In the motivating Pneumonia Etiology Research for Child Health (PERCH) study, because both quantities of interest sum to one hundred percent, the PERCH scientists frequently refer to them as population etiology pie and individual etiology pie, hence the name of the package.
How to cite:
Zhenke Wu (2022). baker: "Nested Partially Latent Class Models". R package version 1.0.3, https://cran.r-project.org/web/packages/baker. Accessed 22 Dec. 2024.
Previous versions and publish date:
1.0.0 (2022-02-02 09:40), 1.0.2 (2023-12-21 12:40)
Other packages that cited baker R package
View baker citation profile
Other R packages that baker depends, imports, suggests or enhances
Complete documentation for baker
Functions, R codes and Examples using the baker R package
Some associated functions: H . I2symb . Imat2cat . NA2dot . add_meas_BrS_case_Nest_Slice . add_meas_BrS_case_Nest_Slice_jags . add_meas_BrS_case_NoNest_Slice . add_meas_BrS_case_NoNest_Slice_jags . add_meas_BrS_case_NoNest_reg_Slice_jags . add_meas_BrS_case_NoNest_reg_discrete_predictor_Slice_jags . add_meas_BrS_ctrl_Nest_Slice . add_meas_BrS_ctrl_NoNest_Slice . add_meas_BrS_ctrl_NoNest_reg_Slice_jags . add_meas_BrS_ctrl_NoNest_reg_discrete_predictor_Slice_jags . add_meas_BrS_param_Nest_Slice . add_meas_BrS_param_Nest_Slice_jags . add_meas_BrS_param_Nest_reg_Slice_jags . add_meas_BrS_param_NoNest_Slice . add_meas_BrS_param_NoNest_Slice_jags . add_meas_BrS_param_NoNest_reg_Slice_jags . add_meas_BrS_param_NoNest_reg_discrete_predictor_Slice_jags . add_meas_BrS_subclass_Nest_Slice . add_meas_SS_case . add_meas_SS_param . as.matrix_or_vec . assign_model . baker . beta_parms_from_quantiles . beta_plot . bin2dec . check_dir_create . clean_combine_subsites . clean_perch_data . combine_data_nplcm . compute_logOR_single_cause . compute_marg_PR_nested_reg . compute_marg_PR_nested_reg_array . create_bugs_regressor_Eti . create_bugs_regressor_FPR . data_nplcm_noreg . data_nplcm_reg_nest . delete_start_with . dm_Rdate_Eti . dm_Rdate_FPR . expit . extract_data_raw . get_coverage . get_direct_bias . get_fitted_mean_nested . get_fitted_mean_no_nested . get_individual_data . get_individual_prediction . get_latent_seq . get_marginal_rates_nested . get_marginal_rates_no_nested . get_metric . get_pEti_samp . get_plot_num . get_plot_pos . get_postsd . get_top_pattern . has_non_basis . init_latent_jags_multipleSS . insert_bugfile_chunk_noreg_etiology . insert_bugfile_chunk_noreg_meas . insert_bugfile_chunk_reg_discrete_predictor_etiology . insert_bugfile_chunk_reg_discrete_predictor_nonest_meas . insert_bugfile_chunk_reg_etiology . insert_bugfile_chunk_reg_nest_meas . insert_bugfile_chunk_reg_nonest_meas . is.error . is_discrete . is_intercept_only . is_jags_folder . is_length_all_one . jags2_baker . line2user . loadOneName . logOR . logit . logsumexp . lookup_quality . make_filename . make_foldername . make_list . make_meas_object . make_numbered_list . make_template . marg_H . match_cause . merge_lists . my_reorder . nplcm . nplcm_fit_NoReg . nplcm_fit_Reg_Nest . nplcm_fit_Reg_NoNest . nplcm_fit_Reg_discrete_predictor_NoNest . nplcm_read_folder . null_as_zero . order_post_eti . overall_uniform . parse_nplcm_reg . pathogen_category_perch . pathogen_category_simulation . plot.nplcm . plot_BrS_panel . plot_SS_panel . plot_case_study . plot_check_common_pattern . plot_check_pairwise_SLORD . plot_etiology_regression . plot_etiology_strat . plot_leftmost . plot_logORmat . plot_panels . plot_pie_panel . plot_subwt_regression . print.nplcm . print.summary.nplcm.no_reg . print.summary.nplcm.reg_nest . print.summary.nplcm.reg_nest_strat . print.summary.nplcm.reg_nonest . print.summary.nplcm.reg_nonest_strat . read_meas_object . rvbern . s_date_Eti . s_date_FPR . set_prior_tpr_BrS_NoNest . set_prior_tpr_SS . set_strat . show_dep . show_individual . simulate_brs . simulate_latent . simulate_nplcm . simulate_ss . softmax . subset_data_nplcm_by_index . summarize_BrS . summarize_SS . summary.nplcm . sym_diff_month . symb2I . tsb . unfactor . unique_cause . unique_month . visualize_case_control_matrix . visualize_season . write.model . write_model_NoReg . write_model_Reg_Nest . write_model_Reg_NoNest . write_model_Reg_discrete_predictor_NoNest . 
Some associated R codes: adhoc-imports.R . baker.R . clean-perch-data.R . compute_functionals_of_model.R . eda.R . example_data.R . nplcm-read-folder.R . nplcm.R . plot-etiology-regression.R . plot-model-check.R . plot-panels.R . set-prior.R . simulate-nplcm.R . summarize_results.R . utils.R . write-model.R .  Full baker package functions and examples
Downloads during the last 30 days
Get rewarded with contribution points by helping add
Reviews / comments / questions /suggestions ↴↴↴

Today's Hot Picks in Authors and Packages

wordspace  
Distributional Semantic Models in R
An interactive laboratory for research on distributional semantic models ('DSM', see < ...
Download / Learn more Package Citations See dependency  
dmlalg  
Double Machine Learning Algorithms
Implementation of double machine learning (DML) algorithms in R, based on Emmenegger and Buehlmann ...
Download / Learn more Package Citations See dependency  
tropAlgebra  
Tropical Algebraic Functions
It includes functions like tropical addition, tropical multiplication for vectors and matrices. In t ...
Download / Learn more Package Citations See dependency  
LOGANTree  
Tree-Based Models for the Analysis of Log Files from Computer-Based Assessments
Enables researchers to model log-file data from computer-based assessments using machine-learning te ...
Download / Learn more Package Citations See dependency  
Maintainer: Qi Qin (view profile)
quickcode  
Quick and Essential 'R' Tricks for Better Scripts
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency  
elect  
Estimation of Life Expectancies Using Multi-State Models
Functions to compute state-specific and marginal life expectancies. The computation is based on a fi ...
Download / Learn more Package Citations See dependency  

23,394

R Packages

201,798

Dependencies

63,416

Author Associations

23,395

Publication Badges

© Copyright 2022 - present. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA