- A scientific research by Jeremie Boudreault, André St-Hilaire, Normand Bergeron and Fateh Chebana
- This project is part of my master studies at *Institut national de la recherche scientifique.
- All scripts and data are made freely available here under the
- Any questions should be sent to firstname.lastname@inrs.ca
The research A new look at habitat suitability curves through functional data analysis was published in Ecological Modelling in 2022.
Data consists of a field survey that have been conducted during summer 2017 on the Sainte-Marguerite River (SMR) and Petite-Cascapedia River (PCR) :
data/field-data/*: contains the two rawxlsxfiles filled after each day of field work.data/gps/*: locations of the studied sites for the two rivers.
Scripts are all from Jeremie Boudreault. They make the use of the R package FDboost for fitting functional regression models (FRM) :
s01_clean_field_data.R: clean the field data spreadsheets and produced cleaned datasets.s02_compute_salmon_numbers.R: convert measured salmon fork-lengths to number of fry and parr.s03_select_study_case.R: select optimal data subset for this project.s04_map_studied_sites.R: map sites studied in this project.s05_generate_fd_curves.R: generate (functional) curves of availability and selection/preference.s06_prepare_data_modelling.R: prepare data prior to fit function regression models (FRM).s07_fit_function_models.R: fit FRMs to curves using a parallelized k-fold cross-validation.s08_define_optimal_stopping.R: choose optimal early stopping parameter.s09_compute_coef_bootstrap.R: compute standard-error of FRM coefficients using bootstrap.s10_plot_frm_coefficients.R: plots intercept and coefficients surfaces from fitted FRM.s11_build_classical_models.R: build classical local and regional models of HSC.s12_assess_models_performance.R: calculate some goodness-of-fit metrics for the fitted models.
Enjoy ! ✌🏻