Make instantaneous natural mortality. — make

The purpose of this function is to query the instantaneous natural mortality (regional estimates) for the selected river from built-in data set containing region-specific mortality for American shad or mortality_rh for river herring.

Usage

make_mortality(
  river,
  sex = c(NULL, "female", "male"),
  species = c("AMS", "ALE", "BBH"),
  custom_habitat = NULL
)

Source

Atlantic States Marine Fisheries Commission

Arguments

river: River for which maximum age is needed.
sex: Fish sex. If NULL (default) or "Pooled", then mean of male and female estimates is used.
species: Species for which population dynamics will be simulated. Choices include American shad ("AMS"), alewife ("ALE"), and blueback herring ("BBH").
custom_habitat: A dataframe containing columns corresponding to the those in the output from custom_habitat_template. The default, NULL uses the default habitat data set for a given combination of species and river.

Value

A numeric vector of length = 1 containing natural instantaneous mortality of fish in population.

References

Atlantic States Marine Fisheries Commission (ASMFC). 2020. American shad benchmark stock assessment and peer-review report. ASMFC, Arlington, VA.

Atlantic States Marine Fisheries Commission. 2024. River herring benchmark stock assessment and peer-review report. ASMFC, Arlington, VA. URL: https://asmfc.org/uploads/file/66f59e40RiverHerringAssessment_PeerReviewReport_2024.pdf

Examples

make_mortality(river = "Penobscot", species = "BBH")
#> [1] 1.0995165 0.8519435 0.7573630 0.7126715 0.6895006 0.6769152 0.6699073
#> [8] 0.6659513