make_mortality: Make instantaneous natural mortality.

In danStich/anadrofish: Anadromous Fish Population Responses to Habitat Changes

Make instantaneous natural mortality.

Description

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
)

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.

Source

Atlantic States Marine Fisheries Commission

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")

danStich/anadrofish documentation built on Jan. 17, 2025, 9:46 a.m.