Preprints
https://doi.org/10.5194/gchron-2020-25
https://doi.org/10.5194/gchron-2020-25

  07 Sep 2020

07 Sep 2020

Review status: a revised version of this preprint was accepted for the journal GChron and is expected to appear here in due course.

GeoChronR – an R package to model, analyze and visualize age-uncertain paleoscientific data

Nicholas P. McKay1, Julien Emile-Geay2, and Deborah Khider3 Nicholas P. McKay et al.
  • 1School of Earth and Sustainability, Northern Arizona University, Flagstaff, AZ 86011, USA
  • 2Department of Earth Sciences, University of Southern California, Los Angeles, CA, 90089, USA
  • 3Information Sciences Institute, University of Southern California, Marina del Rey, CA, USA

Abstract. Chronological uncertainty is a hallmark of the paleosciences. While many tools have been made available to researchers to quantify age uncertainties suitable for various settings and assumptions, disparate tools and output formats often discourage integrative approaches. In addition, associated tasks like propagating age model uncertainties to subsequent analyses, and visualizing the results, have received comparatively little attention in the literature and available software. Here we describe GeoChronR, an open-source R package to facilitate these tasks. GeoChronR is built around emerging data standards for the paleosciences (Linked PaleoData, or LiPD), and offers access to four popular age modeling techniques (Bacon, BChron, Oxcal, BAM). The output of these models is used to support ensemble-aware analyses, quantifying the impact of chronological uncertainties on common analyses like age-uncertain correlation, regression, principal component, and spectral analyses. We present five real-world use cases to illustrate how GeoChronR may be used to facilitate these tasks, to visualize the results in intuitive ways, and to store the results for further analysis, promoting transparency and reusability.

Nicholas P. McKay et al.

 
Status: closed
Status: closed
AC: Author comment | RC: Referee comment | SC: Short comment | EC: Editor comment
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Status: closed
Status: closed
AC: Author comment | RC: Referee comment | SC: Short comment | EC: Editor comment
Printer-friendly Version - Printer-friendly version Supplement - Supplement

Nicholas P. McKay et al.

Nicholas P. McKay et al.

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Latest update: 27 Feb 2021
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Short summary
This paper describes GeoChronR, an R package that streamlines the process of quantifying age uncertainties, propagating uncertainties through several common analyses, and visualizing the results. In addition to describing the structure and underlying theory of the package, we present five real-world use cases that illustrate common workflows in GeoChronR. GeoChronR is built on the Linked PaleoData framework, is open and extensible, and we welcome feedback and contributions from the community.