functions

functions

• clean_taxa.R: extract accepted taxa name from worms and looks for synonyms matching, cleans taxonomy for AphiaID from WoRMS or scientific names provided - extract AphiaID, SpecCode from FishBase, classification, rank and taxa accepted name
• name.filter.fun.R:
• name.matching.fun.R:
• cleanspl.R: clean classical problems from taxa
• write_clean_data.R: writes the file with the clean data in the google drive or locally
• get_length_weight_coeffs.R: extract length-weights relationship coefficients for a taxa in a specific ecosystem from fishbase
• apply_trimming_method1.R:
• apply_trimming_method2.R:
• flag_spp.R:
• read_clean_data.R: read all cleaned survey files and creates compiled datasets including/excluding the flags