Package: COMMA 1.0.0

Kimberly Webb

COMMA: Correcting Misclassified Mediation Analysis

Use three methods to estimate parameters from a mediation analysis with a binary misclassified mediator. These methods correct for the problem of "label switching" using Youden's J criteria. A detailed description of the analysis methods is available in Webb and Wells (2024), "Effect estimation in the presence of a misclassified binary mediator" <doi:10.48550/arXiv.2407.06970>.

Authors:Kimberly Webb [aut, cre]

COMMA_1.0.0.tar.gz
COMMA_1.0.0.tar.gz(r-4.5-noble)COMMA_1.0.0.tar.gz(r-4.4-noble)
COMMA_1.0.0.tgz(r-4.4-emscripten)COMMA_1.0.0.tgz(r-4.3-emscripten)
COMMA.pdf |COMMA.html✨
COMMA/json (API)

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

Peer review:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

3.00 score 10 scripts 204 downloads 6 exports 13 dependencies

Last updated 3 months agofrom:ca3738bb16. Checks:OK: 2. Indexed: no.

TargetResultDate
Doc / VignettesOKSep 20 2024
R-4.5-linuxOKSep 20 2024

Exports:COMMA_dataCOMMA_EMCOMMA_OLSCOMMA_PVWmisclassification_probtrue_classification_prob

Dependencies:codetoolsdoParallelforeachiteratorslatticeMASSMatrixMatrixModelsnumDerivquantregSparseMsurvivalturboEM

COMMA Notation Guide

Kimberly Webb

Rendered fromCOMMA_Notation_Guide.Rmdusingknitr::knitron Sep 20 2024.

Last update: 2024-07-22
Started: 2024-07-22

Demonstration of the COMMA R Package

Created by Kimberly A. Hochstedler Webb. Contact: [email protected]

Rendered fromCOMMA_demo.Rmdusingknitr::knitron Sep 20 2024.

Last update: 2024-07-22
Started: 2024-07-22

Readme and manuals

Help Manual

Help pageTopics
EM-Algorithm Estimation of the Binary Outcome Misclassification ModelCOMBO_EM_algorithm
EM-Algorithm Function for Estimation of the Misclassification ModelCOMBO_EM_function
Compute E-step for Binary Outcome Misclassification Model Estimated With the EM-AlgorithmCOMBO_weight
Generate Data to use in COMMA FunctionsCOMMA_data
EM Algorithm Estimation of the Binary Mediator Misclassification ModelCOMMA_EM
Ordinary Least Squares Estimation of the Binary Mediator Misclassification ModelCOMMA_OLS
Predictive Value Weighting Estimation of the Binary Mediator Misclassification ModelCOMMA_PVW
EM Algorithm Function for Estimation of the Misclassification ModelEM_function_bernoulliY
EM Algorithm Function for Estimation of the Misclassification ModelEM_function_bernoulliY_XM
EM Algorithm Function for Estimation of the Misclassification ModelEM_function_normalY
EM Algorithm Function for Estimation of the Misclassification ModelEM_function_normalY_XM
EM Algorithm Function for Estimation of the Misclassification ModelEM_function_poissonY
EM Algorithm Function for Estimation of the Misclassification ModelEM_function_poissonY_XM
Compute Conditional Probability of Observed Mediator Given True Mediator, for Every Subjectmisclassification_prob
Compute Probability of Each True Outcome, for Every Subjectpi_compute
Compute Conditional Probability of Each Observed Outcome Given Each True Outcome, for Every Subjectpistar_compute
Sum Every "n"th Elementsum_every_n
Sum Every "n"th Element, then add 1sum_every_n1
Likelihood Function for Normal Outcome Mechanism with a Binary Mediatortheta_optim
Likelihood Function for Normal Outcome Mechanism with a Binary Mediator and an Interaction Termtheta_optim_XM
Compute Probability of Each True Mediator, for Every Subjecttrue_classification_prob
Compute E-step for Binary Mediator Misclassification Model Estimated With the EM Algorithmw_m_binaryY
Compute E-step for Binary Mediator Misclassification Model Estimated With the EM Algorithmw_m_normalY
Compute E-step for Binary Mediator Misclassification Model Estimated With the EM Algorithmw_m_poissonY