Package: FastJM
Type: Package
Title: Semi-Parametric Joint Modeling of Longitudinal and Survival Data
Version: 1.7.0
Date: 2026-07-20
Authors@R: c(
    person("Shanpeng", "Li", email = "lishanpeng0913@ucla.edu", 
        role = c("aut", "cre")),
    person("Ace", "Mejia-Sanchez", email = "aceisabel.mejiasanchez1@ucr.edu", 
        role = "ctb"),  
    person("Emily", "Ouyang", email = "eouya001@ucr.edu", 
        role = "ctb"),   
    person("Gang", "Li", email = "vli@ucla.edu", 
        role = "ctb")
    )
Maintainer: Shanpeng Li <lishanpeng0913@ucla.edu>
Encoding: UTF-8
Description: Implements scalable joint models for large-scale competing
        risks time-to-event data with one or multiple longitudinal
        biomarkers using the efficient algorithms developed by Li et
        al. (2022) <doi:10.1155/2022/1362913> and
        <doi:10.48550/arXiv.2506.12741>. The time-to-event process is
        modeled using a cause-specific Cox proportional hazards model
        with time-fixed covariates, while longitudinal biomarkers are
        modeled using linear mixed-effects models. The association
        between the longitudinal and survival processes is captured
        through shared random effects. The package enables analysis of
        large-scale biomedical data to model biomarker trajectories,
        estimate their effects on event risks, and perform dynamic
        prediction of future events based on patients' longitudinal
        histories. Functions for simulating survival and longitudinal
        data for multiple biomarkers are included, along with built-in
        example datasets. The package also supports modeling a single
        biomarker with heterogeneous within-subject variability via
        functionality adapted from the 'JMH' package.
License: GPL (>= 3)
NeedsCompilation: yes
Imports: Rcpp (>= 1.0.7), dplyr, nlme, caret, pec, future,
        future.apply, tidycmprsk, rlang (>= 0.4.11), ggsurvfit,
        ggplot2, ggpubr
LinkingTo: Rcpp, RcppEigen
Depends: R (>= 3.5.0), survival, utils, MASS, statmod, magrittr, stats
RoxygenNote: 7.3.2
LazyData: true
Packaged: 2026-07-21 18:00:15 UTC; root
VignetteBuilder: knitr
Suggests: testthat (>= 3.0.0), spelling, knitr, rmarkdown
Language: en-US
Config/testthat/edition: 3
Config/pak/sysreqs: cmake make libicu-dev libuv1-dev libxml2-dev
        libssl-dev libnode-dev
Repository: https://shanpengli.r-universe.dev
Date/Publication: 2026-07-21 16:51:06 UTC
RemoteUrl: https://github.com/shanpengli/fastjm
RemoteRef: HEAD
RemoteSha: 4c49b370a6adef7e9e7c7ed45c908b34b6f6f6fc
Author: Shanpeng Li [aut, cre],
  Ace Mejia-Sanchez [ctb],
  Emily Ouyang [ctb],
  Gang Li [ctb]