Repository for the publication: Evaluating pan-European freshwater typologies in light of their macroinvertebate communites.
This repository contains the R code for the related manuscript published in ... .
Written by Jonathan F. Jupke, Pepe Barquín, Núria Bonada, Christian K. Feld, Peter Haase, Kaisa-Leena Huttunen, Miguel Cañedo-Argüelles, Timo Muotka, Riku Paavola, Edwin T. H. M. Peeters, Leonard Sandin, Denes Schmera, Philippe Usseglio-Polatera, Ralf B. Schäfer
Contents overview:
helper/ - auxiliary scripts that are called from the scripts below
01_combine_data_sets.R - combine individual macroinvertebrate data sets
02_remove_sites_removed_from_river.R - remove sites that are more than 500 meters away from the next stream segment + assign BRT type to samples
03_determine_impact_with_landcover.R - determined impact category through catchment landcover
04_add_more_typologies.R - add types of other typologies to samples
05_taxonomic_resolution_1.R - determine optimal taxonomic resolution for each taxon/ type (1)
06_taxonomic_resolution_2.R - determine optimal taxonomic resolution for each taxon/ type (2)
07_create_sitesXspecies_mzb.R - create a site X species presence absence table
08_derive_typical_assemblages.R - derinve typical assemblages
09_create_biological_typology.R - create biological typology
10_add_typologies_to_bio.R - add other typologies to data
11_evaluate_clusters.R - compute cluster validity metrics
12_create_map_of_samplig_sites.R - create maps in the publication
13_create_maps_of_sampling_sites_per_stream_type.R - create maps with samples per stream type