Authors

Andre E. Punt, Kelli F. Johnson, James T. Thorson, Ian G. Taylor, Paul Burch

Contributors

Ian J. Stewart, Melissa A. Haltuch

Description

The AgeingError package estimates uncertainty in age estimates double-reads of hard structures (e.g., otoliths) based on the method of Punt et al. (2008) that account for both ageing bias and imprecision. The output can be used in Stock Synthesis or other assessment platforms that incorporate ageing error.

References

• Punt, A. E., Smith, D. C., KrusicGolub, K., & Robertson, S. (2008). Quantifying age-reading error for use in fisheries stock assessments, with application to species in Australia’s southern and eastern scalefish and shark fishery. Canadian Journal of Fisheries and Aquatic Sciences, 65(9), 1991–2005. https://doi.org/10.1139/f08-111

Installation Instructions

The easiest installation method is to use a pre-compiled version on R-universe from the R console:

install.packages("AgeingError", repos = c("https://noaa-fisheries-integrated-toolbox.r-universe.dev", "https://cloud.r-project.org"))

You can also install from GitHub from the R console using the code below which will compile the package locally (which takes longer and requires Rtools for Windows users):

remotes::install_github("pfmc-assessments/AgeingError")



Citation

Users should cite both the R package and Punt et al. 2008, both described at https://pfmc-assessments.github.io/AgeingError/authors.html#citation

Keywords

• Data Exploration
• Fisheries
• R Package
• TMB

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