Package: geex 1.1.1

geex: An API for M-Estimation

Provides a general, flexible framework for estimating parameters and empirical sandwich variance estimator from a set of unbiased estimating equations (i.e., M-estimation in the vein of Stefanski & Boos (2002) <doi:10.1198/000313002753631330>). All examples from Stefanski & Boos (2002) are published in the corresponding Journal of Statistical Software paper "The Calculus of M-Estimation in R with geex" by Saul & Hudgens (2020) <doi:10.18637/jss.v092.i02>. Also provides an API to compute finite-sample variance corrections.

Authors:Bradley Saul [aut, cre], Brian Barkley [ctb]

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geex.pdf |geex.html
geex/json (API)
NEWS

# Install 'geex' in R:
install.packages('geex', repos = c('https://bsaul.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/bsaul/geex/issues

Datasets:
  • geexex - Dataset used to illustrate Stefanski and Boos examples.

On CRAN:

asymptoticscovariance-estimatescovariance-estimationestimate-parametersestimating-equationsestimationinferencem-estimationrobustsandwich

7.69 score 8 stars 2 packages 129 scripts 319 downloads 39 exports 12 dependencies

Last updated 7 months agofrom:2ef096f6e9. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 04 2024
R-4.5-winNOTENov 04 2024
R-4.5-linuxNOTENov 04 2024
R-4.4-winNOTENov 04 2024
R-4.4-macNOTENov 04 2024
R-4.3-winNOTENov 04 2024
R-4.3-macNOTENov 04 2024

Exports:coefcompute_sigmacorrect_bycorrectioncreate_basiscreate_GFUNcreate_psiFUN_listdiagnose_rootsestimate_GFUN_rootsestimate_sandwich_matricesfay_bias_correctionfay_df_correctionget_correctionsgrabgrab_breadgrab_bread_listgrab_design_levelsgrab_design_matrixgrab_ee_listgrab_estFUNgrab_fixed_formulagrab_GFUNgrab_meatgrab_meat_listgrab_psiFUNgrab_psiFUN_listgrab_responsegrab_response_formulam_estimatenobsrootssetup_approx_controlsetup_controlsetup_deriv_controlsetup_root_controlshowsummaryvcovweights

Dependencies:bootlatticelme4MASSMatrixminqanlmenloptrnumDerivRcppRcppEigenrootSolve

A comparison of geex and sandwich for robust covariance estimation

Rendered fromv02_sandwich_comparison.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2017-08-10
Started: 2017-08-10

Additional calculus of M-estimation examples using geex

Rendered fromv01_additional_examples.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2022-07-19
Started: 2017-08-10

Estimating causal parameters using geex

Rendered fromv06_causal_example.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2020-02-17
Started: 2017-08-10

Finite sample correction API in geex

Rendered fromv05_finite_sample_corrections.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2017-08-23
Started: 2017-08-10

An introduction to M-estimation with geex

Rendered fromv00_geex_intro.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2017-08-23
Started: 2017-08-10

Using different or custom root solvers in geex

Rendered fromv03_root_solvers.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2017-09-01
Started: 2017-08-10

The design and structure of geex

Rendered fromv07_geex_design.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2017-08-18
Started: 2017-08-10

Speeding computations using weights in geex

Rendered fromv04_weights.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2017-08-10
Started: 2017-08-10

Readme and manuals

Help Manual

Help pageTopics
geex: M-estimation APIgeex-package geex
approx_control S4 classapprox_control-class
basic_control S4 classbasic_control-class
Gets the parameter estimates from a geex objectcoef,geex,geex-method coef,geex-method coef,geex_summary-method
Compute empirical sandwich covariate estimatorcompute_sigma
Correct sandwich componentscorrect_by
correct_control S4 classcorrect_control-class
Creates a correct_control objectcorrection
Creates an m_estimation_basis objectcreate_basis
Creates a function that sums over psi functionscreate_GFUN create_GFUN,m_estimation_basis,m_estimation_basis-method create_GFUN,m_estimation_basis-method
Creates list of psi functionscreate_psiFUN_list create_psiFUN_list,m_estimation_basis,m_estimation_basis-method create_psiFUN_list,m_estimation_basis-method
deriv_control S4 classderiv_control-class
Diagnose roots of estimating equationsdiagnose_roots
Estimate roots for a set of estimating equationsestimate_GFUN_roots
Estimate component matrices of the empirical sandwich covariance estimatorestimate_sandwich_matrices
estimating_function S4 classestimating_function-class
Correct sandwich variance estimator byFay's bias correctionfay_bias_correction
Correct sandwich variance inference by Fay's degrees of freedom correctionfay_df_correction
geex_control S4 classgeex_control-class
geex summary objectgeex_summary-class
geex S4 classgeex-class
Dataset used to illustrate Stefanski and Boos examples.geexex
Gets the corrections from a geex objectget_corrections get_corrections,geex-method get_corrections,geex_summary-method get_corrections,m_estimation_basis,m_estimation_basis-method
Grab something from an objectgrab
Grabs the .A (bread matrix) slotgrab_bread grab_bread,sandwich_components,sandwich_components-method grab_bread,sandwich_components-method
Gets the .A_i (list of bread matrices) slotgrab_bread_list grab_bread_list,sandwich_components,sandwich_components-method grab_bread_list,sandwich_components-method
Grab a list of the levels of factor variables in a model.grab_design_levels
Grab a matrix of fixed effects from a model objectgrab_design_matrix
Gets the .ee_i (observed estimating function) slotgrab_ee_list
Grab estimating functions from a model objectgrab_estFUN grab_estFUN,estimating_function,estimating_function-method grab_estFUN,estimating_function-method
Grab the RHS formula from a model objectgrab_fixed_formula
Gets the .psi_list slot in a m_estimation_basisgrab_GFUN grab_GFUN,geex,geex-method grab_GFUN,geex-method grab_GFUN,m_estimation_basis,m_estimation_basis-method grab_GFUN,m_estimation_basis-method
Gets the .B (meat matrix) slotgrab_meat grab_meat,sandwich_components,sandwich_components-method grab_meat,sandwich_components-method
Gets the .B_i (list of bread matrices) slotgrab_ee_list,sandwich_components-method grab_meat_list grab_meat_list,sandwich_components,sandwich_components-method grab_meat_list,sandwich_components-method
Grab estimating functions from a model objectgrab_psiFUN grab_psiFUN.geeglm grab_psiFUN.glm grab_psiFUN.merMod
Gets the .psi_list slot in a m_estimation_basisgrab_psiFUN_list grab_psiFUN_list,geex,geex-method grab_psiFUN_list,geex-method grab_psiFUN_list,m_estimation_basis,m_estimation_basis-method grab_psiFUN_list,m_estimation_basis-method
Grab a vector of responses from a model objectgrab_response
Grab the LHS formula from a model objectgrab_response_formula
Estimate parameters and their covariance from a set of estimating equationsm_estimate
m_estimation_basis S4 classm_estimation_basis-class
Extract the number observationsnobs,geex,geex-method nobs,geex-method nobs,geex_summary,geex_summary-method nobs,geex_summary-method
root_control S4 classroot_control-class
Gets the parameter estimates matrix from a geex objectroots roots,geex,geex-method roots,geex-method roots,geex_summary-method
sandwich_components S4 classsandwich_components-class
Setup an approx_control objectsetup_approx_control
Setup a basic_control objectsetup_control
Setup a deriv_control objectsetup_deriv_control
Setup a root_control objectsetup_root_control
Show (print) the S4 geex classesshow show,geex,geex-method show,geex-method show,geex_summary,geex_summary-method show,geex_summary-method show,m_estimation_basis,m_estimation_basis-method show,m_estimation_basis-method show,sandwich_components,sandwich_components-method show,sandwich_components-method
Object Summariessummary,geex-method
Gets the variance-covariance matrix from a geex objectvcov,geex,geex-method vcov,geex-method vcov,geex_summary,geex_summary-method vcov,geex_summary-method
Extract Model weightsweights,geex,geex-method weights,geex-method weights,geex_summary,geex_summary-method weights,geex_summary-method