model_ai_plus: Abundance-GLM modeling process

In polehalieutique/demerstem: This package aims to falicitate Fish stock assessement for west african partners involved in the EU DEMERSTEM project

Abundance-GLM modeling process

Description

model_ai_plus runs the actions for the GLM modeling process on abundance data.

Usage

model_ai_plus(
  tab,
  esp,
  title,
  list_param,
  var_eff_list,
  espece_id,
  catch_col,
  interactions = FALSE,
  limit,
  formula_select,
  plot = FALSE,
  summary = FALSE,
  type = 2
)

Arguments

tab	input dataset table
esp	exact name of the studied species
title	fraction of the title in the plots
list_param	list of the tested parameters
var_eff_list	list of the possible fishing effort column
espece_id	exact name of the column indicating the species
catch_col	exact name of the column indicating the catches
interactions	FALSE by default. IF TRUE, print the interactions plots
limit	percentage representing the limit value under which the modality is removed
formula_select	if "auto", the function select which formula as the lowest AIC. Else, run the selected formula.
plot	FALSE by default. If TRUE, print the data presentation histograms
summary	FALSE by default. If TRUE, print the summary of the selected GLM
type	To study marginal effects with Anova type III in case of interaction

Examples

 data(tableau_sc)
 model_ai_plus(tableau_sc, esp = "PSEUDOTOLITHUS ELONGATUS", effort = "auto", title = "SC", list_param = c("annee", "saison", "strate"), var_eff_list=c("surface_chalutee"), espece_id='nom_taxonomique', catch_col='total_capture', interactions =FALSE, limit=0.001, formula_select = "log(i_ab+0.0001) ~ strate + annee + saison")

polehalieutique/demerstem documentation built on Aug. 4, 2024, 5:12 a.m.