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BVMtool is a set of R scripts automating marine biological valuation calculations based on the biological valuation concept as developed by Derous et al. 2007 and described by Deneudt et al 2013. Based on a recommended format for data input, the script facilitates the calculation of a number of valuation questions that are commonly solved when observational data on species densities are available. The results of the valuation questions are summarized in final scores for each ecosystem component and can be combined with the final results obtained for other ecosystem components. Subzones can be defined as raster grid cells of a desired size or can be based on polygons of a habitat classification provided by the user. The script also offers the possibility to run a number of quality control procedures on the input data, including a taxonomic quality control using the web services built on the World Register of Marine Species.
pywhip is a Python package to validate data against whip specifications, a human and machine-readable syntax to express specifications for data.
Benthos Ecosystem Quality Index (BEQI). BEQI is a biological index that is used to assess the state of the benthos of coastal and transitional waters for the Water Framework Directive. Taking into consideration the large intrinsic variability of estuarine and coastal systems and the importance of ecosystem functioning within a water body, Ysebaert & Herman (2003) advocate a multilevel scale-dependent approach for the classification of the quality elements in coastal and transitional waters. The proposed multilevel approach consists of three levels: (1) level 1 - Ecosystem level; (2) level 2 - Habitat level; (3) level 3 - Community (within habitat) level. Where suitable input and reference data is provided, the tool will calculate Ecosystem quality scores and produce a list of species that are responsible for observed deviations from the reference state.