CIMEHR: Longitudinal EHR Analysis with Informative Visits and Recording
Longitudinal outcomes in electronic health records (EHR) are seen only when a patient visits and the outcome is recorded at that visit, and both processes can depend on the patient's latent health. The package fits the CIMEHR estimator for this setting, a three-stage procedure linked by a shared latent factor: a frailty partial likelihood for the visiting process, a pairwise likelihood for the recording (observation) process, and an estimating equation for the outcome. Spline and higher-order Laplace variants are included, together with comparison methods (summary statistics, linear mixed models, Lin-Ying, Liang, pairwise likelihood, joint models, inverse intensity rate ratio weighting and balancing, multiple imputation, linear increments and EHRJoint) behind one common interface. Methods are described in Yang, Shi, and Mukherjee (2026) <doi:10.48550/arXiv.2602.15374>.
| Version: | 0.2.0 |
| Depends: | R (≥ 4.1.0) |
| Imports: | nlme, parallel, Rcpp, splines, stats, tools, utils |
| LinkingTo: | Rcpp |
| Suggests: | ggplot2 (≥ 3.4.0), knitr, mice, pan, rmarkdown |
| Published: | 2026-10-22 |
| DOI: | 10.32614/CRAN.package.CIMEHR |
| Author: | Cheng-Han Yang 
[aut, cre],
Yiren Hou [aut] |
| Maintainer: | Cheng-Han Yang <chenghanyang728 at gmail.com> |
| BugReports: | https://github.com/ysph-dsde/CIMEHR/issues |
| License: | MIT + file LICENSE |
| Copyright: | See file inst/COPYRIGHTS. CIMEHR copyright details |
| URL: | https://github.com/ysph-dsde/CIMEHR |
| NeedsCompilation: | yes |
| Citation: | CIMEHR citation info |
| Materials: | README, NEWS |
| CRAN checks: | CIMEHR results |
Documentation:
| Reference manual: | CIMEHR.html , CIMEHR.pdf |
| Vignettes: |
From EHR visit records to fitted biomarker trajectories (source, R code) |
Downloads:
| Package source: | CIMEHR_0.2.0.tar.gz |
| Windows binaries: | r-devel: CIMEHR_0.1.0.zip, r-release: CIMEHR_0.1.0.zip, r-oldrel: CIMEHR_0.1.0.zip |
| macOS binaries: | r-release (arm64): CIMEHR_0.2.0.tgz, r-oldrel (arm64): CIMEHR_0.2.0.tgz, r-release (x86_64): CIMEHR_0.2.0.tgz, r-oldrel (x86_64): CIMEHR_0.2.0.tgz |
| Old sources: | CIMEHR archive |
Linking:
Please use the canonical form https://CRAN.R-project.org/package=CIMEHR to link to this page.