model_output: Produce input for the SMS model.

In MortenVinther/FishStomachs: Compilation of stomach contents data

Produce input for the SMS model.

Description

Transform diet data (of class STOMdiet) into data used for the SMS model.

Usage

model_output(diet, length_classes_file, sp_info_file, intoSMSformat = FALSE)

Arguments

diet	Object of class STOMdiet. The transformation uses values provided by the list control@model_options The list must include the names "delete_small": logical, delete input with relative stomach contents weight lower than "min_value". If TRUE values smaller than "min_values" are deleted. If FALSE values lower than "min_value" are increased to "min_value". "min_value": minimum relative stomach contents weight (see above) "insert_mid_value": logical, insert dummy value ("mid_value") where observations for a prey within a size range are missing "mid_value": value used for missing mid-values. "insert_tails", logical for insertion of dummy values("tail_value") for the prey size class which are lower and higher than the observed size range for a prey "tail_value": value used for missing tail-values. In addition a number for each predator and prey species is added (and later used for ordering of species). data for that is included in the CSV file sp_info_file.
length_classes_file	CSV file with definition of length classes.
sp_info_file	CSV file with the fields used arranging order of predator and prey. The file must include two fields code (predator and prey names used in input) and number (integer for arranging predator and preys).
intoSMSformat	Logical for transformation into SMS format.

Value

Data for use in the SMS model.

Examples

## Not run: x=2

MortenVinther/FishStomachs documentation built on Feb. 14, 2025, 7:33 a.m.