Pack: Application of Ecological Niche Modelling and Earth Observation for the Risk Assessment and Monitoring of Invasive Species in the Baltic Sea

Description:

The potential distribution of Alexandrium minutum

Description:

The potential distribution  of Alexandrium minutum in the Baltic Sea

Description:

This workflow takes as input a file containing species occurrence points to create a model with the openModeller Web Service using the Bioclim algorithm. Environmental layers and mask are selected during the workflow. Points are filtered so that only environmentally unique points are used to create the model.

You can use this workflow to either filter a set of species occurrence points excluding redundant points with the same environmental conditions (you can get the result in the output "selected_csv_points") or to know the environmental ranges for each variable considering all input points. In the later case, you can inspect the "model_xml" to find this information in the Maximum and MInimum attributes of the Bioclim element. Values are separated by a space in the same order of the layers. Please note that there are no model tests or projections in this workflow.

For more information about the input file format, please look at the documentation for the corresponding parameter. If you use the default occurrence points you should know that Gammarus tigrinus is an aquatic species, so you need to choose marine environmental layers during the modelling procedure.

Workflow requirements: When running on Taverna workbench, this workflow requires Internet connection and the Taverna interaction plugin installed.

Description:

This workflow takes as input a file containing species occurrence points to create a model with the openModeller Web Service. Algorithm, environmental layers and mask are selected during the workflow. The model is tested (internal test and optional cross validation external test) and then projected one or more times. All points from the input file are used to create a single model, even if there are differences in the scientific names. Cross validation calculates the mean AUC. Model projections can be downloaded from the links in the workflow output. They are geotiff files with suitability values ranging from 0 to 254 (nodata=255).

For more information about the input file format, please check the documentation of the corresponding parameter. The default occurrence points are from a marine species called Gammarus tigrinus, so it is necessary to choose marine environmental layers during the modelling procedure to use it.

Workflow requirements: When running on Taverna workbench, this workflow requires Internet connection and the Taverna interaction plugin installed.

Please note that ecological niche modelling experiments can take a long time to run depending on the parameters - sometimes several hours. This may happen with high resolution environmental layers, thousands of occurrence points and heavy algorithms, such as ANN and GARP BS. Cancelling a workflow run may not cancel the corresponding job on the server side, so if this procedure is repeated the server may get overloaded.

More information and documentation about this workflow can be found here: https://wiki.biovel.eu/display/doc/Ecological+Niche+Modelling+%28ENM%29+Workflow