calc_lw_residuals: A function to calculate length-weight residuals

In sean-rohan-NOAA/akfishcondition: Groundfish morphometric condition indicator

A function to calculate length-weight residuals

Description

This function makes a log-log regression of length and weight for individual fish and then calculates a residual. A Bonferroni-corrected outlier correction can be applied to remove outliers. Option to use separate covariates for different strata.

Usage

calc_lw_residuals(
  len,
  wt,
  stratum = NA,
  bias_correction = TRUE,
  outlier_rm = FALSE,
  make_diagnostics = FALSE,
  species_code = NA,
  year = NA,
  region = NA,
  include_ci = TRUE
)

Arguments

stratum	Stratum code for length-weight regression by stratum.
bias_correction	Bias corrected residuals following Brodziak (2012)
outlier_rm	Should outliers be removed using Bonferoni test (cutoff = 0.7)
make_diagnostics	Output diagnostic plots and summaries? Default FALSE produces no diagnostics and summaries. If true, species_code and region should be specified.
species_code	Species code (provide if make_diagnostics = TRUE)
year	Year (provide if make_diagnostics = TRUE)
region	Region (provide if make_diagnostics = TRUE)
include_ci	Include upper and lower estimates for the 95 pct confidence interval of residuals in the output.
length	Set of individual fish lengths.
weight	Corresponding set of individual fish weights.

Details

Brodziak, J.2012. Fitting length-weight relationships with linear regression using the log-transformed allometric model with bias-correction. Pacific Islands Fish. Sci. Cent., Natl. Mar. Fish. Serv., NOAA, Honolulu, HI 96822-2396. Pacific Islands Fish. Sci. Cent. Admin. Rep. H-12-03, 4 p.

sean-rohan-NOAA/akfishcondition documentation built on June 9, 2025, 3:54 p.m.