Package: AgeTopicModels
Title: Inferring Age-Dependent Disease Topic from Diagnosis Data
Version: 0.3.0
Authors@R: 
    person("Xilin", "Jiang", , "jiangxilin1@gmail.com", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0001-6773-9182"))
Description: We propose an age-dependent topic modelling (ATM) model,
        providing a low-rank representation of longitudinal records of
        hundreds of distinct diseases in large electronic health record
        data sets. The model assigns to each individual topic weights
        for several disease topics; each disease topic reflects a set
        of diseases that tend to co-occur as a function of age,
        quantified by age-dependent topic loadings for each disease.
        The model assumes that for each disease diagnosis, a topic is
        sampled based on the individual’s topic weights (which sum to 1
        across topics, for a given individual), and a disease is
        sampled based on the individual’s age and the age-dependent
        topic loadings (which sum to 1 across diseases, for a given
        topic at a given age). The model generalises the Latent
        Dirichlet Allocation (LDA) model by allowing topic loadings for
        each topic to vary with age. References: Jiang (2023)
        <doi:10.1038/s41588-023-01522-8>.
License: MIT + file LICENSE
Depends: R (>= 3.5)
Imports: data.table, dplyr, ggplot2, ggrepel, grDevices, gtools,
        magrittr, pROC, reshape2, rlang, stats, stringr, tibble, tidyr,
        utils
Suggests: testthat (>= 3.0.0)
Config/testthat/edition: 3
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
RoxygenNote: 7.3.3
NeedsCompilation: no
Packaged: 2026-10-31 10:08:50 UTC; root
Author: Xilin Jiang [aut, cre] (ORCID:
        <https://orcid.org/0000-0001-6773-9182>)
Maintainer: Xilin Jiang <jiangxilin1@gmail.com>
Config/pak/sysreqs: libicu-dev
Repository: https://xilin-jiang.r-universe.dev
Date/Publication: 2026-02-28 12:20:02 UTC
RemoteUrl: https://github.com/cran/AgeTopicModels
RemoteRef: HEAD
RemoteSha: 78cbce78d9a57fb36cdf72840d6c6decba707354