IDEAS home Printed from https://ideas.repec.org/a/plo/pone00/0228073.html
   My bibliography  Save this article

lillies: An R package for the estimation of excess Life Years Lost among patients with a given disease or condition

Author

Listed:
  • Oleguer Plana-Ripoll
  • Vladimir Canudas-Romo
  • Nanna Weye
  • Thomas M Laursen
  • John J McGrath
  • Per Kragh Andersen

Abstract

Life expectancy at a given age is a summary measure of mortality rates present in a population (estimated as the area under the survival curve), and represents the average number of years an individual at that age is expected to live if current age-specific mortality rates apply now and in the future. A complementary metric is the number of Life Years Lost, which is used to measure the reduction in life expectancy for a specific group of persons, for example those diagnosed with a specific disease or condition (e.g. smoking). However, calculation of life expectancy among those with a specific disease is not straightforward for diseases that are not present at birth, and previous studies have considered a fixed age at onset of the disease, e.g. at age 15 or 20 years. In this paper, we present the R package lillies (freely available through the Comprehensive R Archive Network; CRAN) to guide the reader on how to implement a recently-introduced method to estimate excess Life Years Lost associated with a disease or condition that overcomes these limitations. In addition, we show how to decompose the total number of Life Years Lost into specific causes of death through a competing risks model, and how to calculate confidence intervals for the estimates using non-parametric bootstrap. We provide a description on how to use the method when the researcher has access to individual-level data (e.g. electronic healthcare and mortality records) and when only aggregated-level data are available.

Suggested Citation

  • Oleguer Plana-Ripoll & Vladimir Canudas-Romo & Nanna Weye & Thomas M Laursen & John J McGrath & Per Kragh Andersen, 2020. "lillies: An R package for the estimation of excess Life Years Lost among patients with a given disease or condition," PLOS ONE, Public Library of Science, vol. 15(3), pages 1-18, March.
    • Handle: RePEc:plo:pone00:0228073
    DOI: 10.1371/journal.pone.0228073
    as

    Download full text from publisher

    File URL: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0228073
    Download Restriction: no
    File URL: https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0228073&type=printable
    Download Restriction: no
    File URL: https://libkey.io/10.1371/journal.pone.0228073?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    References listed on IDEAS

    as
    1. Per Kragh Andersen & Vladimir Canudas-Romo & Niels Keiding, 2013. "Cause-specific measures of life years lost," Demographic Research, Max Planck Institute for Demographic Research, Rostock, Germany, vol. 29(41), pages 1127-1152.
    Full references (including those not matched with items on IDEAS)

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Ryohei Mogi & Vladimir Canudas-Romo, 2018. "Expected years ever married," Demographic Research, Max Planck Institute for Demographic Research, Rostock, Germany, vol. 38(47), pages 1423-1456.
    2. Govert E. Bijwaard & Mikko Myrskylä & Per Tynelius & Finn Rasmussen, 2017. "Educational gain in cause-specific mortality: accounting for confounders," MPIDR Working Papers WP-2017-003, Max Planck Institute for Demographic Research, Rostock, Germany.
    3. Govert E. Bijwaard & Per Tynelius & Mikko Myrskylä, 2019. "Education, cognitive ability, and cause-specific mortality: A structural approach," Population Studies, Taylor & Francis Journals, vol. 73(2), pages 217-232, May.
    4. Soetewey, Antoine & Legrand, Catherine & Denuit, Michel & Silversmit, Geert, 2023. "Health indices for disease incidence and duration in the Semi-Markov setting," LIDAM Discussion Papers ISBA 2023013, Université catholique de Louvain, Institute of Statistics, Biostatistics and Actuarial Sciences (ISBA).
    5. Bijwaard, Govert E. & Myrskylä, Mikko & Tynelius, Per & Rasmussen, Finn, 2017. "Educational gains in cause-specific mortality: Accounting for cognitive ability and family-level confounders using propensity score weighting," Social Science & Medicine, Elsevier, vol. 184(C), pages 49-56.
    6. Akushevich, I. & Yashkin, A. & Kovtun, M. & Stallard, E. & Yashin, A.I. & Kravchenko, J., 2023. "Decomposition of disparities in life expectancy with applications to administrative health claims and registry data," Theoretical Population Biology, Elsevier, vol. 153(C), pages 50-68.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:plo:pone00:0228073. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: plosone (email available below). General contact details of provider: https://journals.plos.org/plosone/ .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.