j-ydi / stage-m2-dias_jy

Github of the Jean-Yves DIAS Internship

Phytoplankton community structure and composition on the French coast: long-term evolution and response to dinoflagellate and diatom blooms

Jean-Yves DIAS Internship - M2 Sciences de la Mer - Sorbonne University

Laboratories ISOMer & LS2N - Nantes University

Supervised by Samuel Chaffron (LS2N), Pierre Gernez (ISOMer) & Victor Pochic (ISOMer, IFREMER-LERMPL)

Github organisation

Scripts folder :

• Script_echantillonnage_description.R : Script used to analyze sampling at REPHY stations
• Script_data_import.R : Script used to manipulate datasets and create new ones
• Script_clustering_station.R : Script used to regionalize REPHY stations
• Script_maps.R : Script used to vizualise the different regions through a map
• Script_analyse_cluster.R : Script used to test differences between regions
• Script_compo_communaute.R : Script used to determine community composition for different regions
• Script_regul_desaison_trend_change_CHLOROA.R : Script used to detect blooms
• Script_analyse_outliers_trend_change.R : Script used to return to the real dates of the detected blooms and validate the method
• Script_caracterisation_bloom.R : Script used to perform some tests on the blooms obtained
• Script_diversite_beta.R : Script used to calculate and compare beta diversity indices
• Script_reseaux.R : Script used for all work on association ecological networks
• Script_comparaison_blooms.R : Script used to compare blooms

data folder :

• data_download : contains the link to the initial datasets used for the training course provided by REPHY national coordination.
• contains also some datasets with information about the sampling

data_modif folder :

• contains all the dataset created for the study, all can be obtained by the different scripts and the files from the data folder except Table_bloom_R_v3c.csv

data_outliers folder :

• contains some datasets about the outliers from the chlorophyll-a dataseries, used for detect blooms

Manuscript.pdf : Internship report

Contact : [email protected]