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  • An R package to get downloads from the EurOBIS database. In 2019, development started for the eurobis R package, to serve as an easy to use interface to download EurOBIS data in R. Currently, the main functions and documentation are being developed and are working, but need some further testing and user feedback before it can be officially released.

  • This service extracts from GBIF (Global Biodiversity Information Facility) taxa occurrence records that were not classified as NIS in Step 3 (GBIF NIS Verifier) of the Metabarcoding workflow. This step aims to verify if eDNA detections were identified outside the known distribution range using GBIF occurrences records. Additionally, for such eDNA detections, this step produces a geographical spatial polygon based on occurrence records available in GBIF. It represents the Step 4 of the Metabarcoding Workflow within the Internal Joint Initiative.

  • This service intersects the map(s) (geographical spatial polygons) from GBIF occurrence(s) with the locations of a list of taxa detected from eDNA metabarcoding and which were not included in the NIS checklist to verify if such eDNA detection(s) is/are likely to be new NIS detected in that location from eDNA sequences. It represents the Step 5 of the Metabarcoding Workflow within the Internal Joint Initiative.

  • This service aims at normalizing the user datasets to be consistent with the accepted formats. It represents the Step 3 of the Biotope vulnerability Workflow within the Internal Joint Initiative.

  • This service aims at running various statistical analyses in RvLab on the produced data produced in this workflow. It represents the Step 10 of the ARMS Workflow within the Internal Joint Initiative.

  • This service allows to filter the list of samples in the MasterARMS csv file on date range (start and end date in ISO format) and geographic location (lat and lon in decimal degrees). Moreover, also the selection of specific samples is permitted. It represents the Step 3 of the ARMS Workflow within the Internal Joint Initiative.

  • The service aims at harvesting species occurrences from GBIF based on a keyword for the geographic region (two letter country code) and a time interval, both entered by the user. It represents the Step 1a of the Biotope vulnerability Workflow within the Internal Joint Initiative.

  • This step of the ARMS IJI workflow does the following: - Input: the OTU tables from the previous step (running the omics pipeline), containing taxa (usually genus or species names) obtained from the databases used by the pipeline; - Check: using the WoRMS taxon match webservice to check for the WoRMS match to those taxa; - Output: the WoRMS match (yes or not) and, if matched, the scientific name and aphiaID. It represents the Step 7 of the ARMS Workflow within the Internal Joint Initiative.

  • This step of the ARMS IJI workflow does the following: - Input: the output from the previous step (running a taxon check on the input species names using the WoRMS taxon checker); - Input: geographical locations for the sample(s) that those species were found at; - Check: using the WRIMS taxon match webservice to check the known distribution of the species; - Output: information about whether the species are alien or native to the location they were found at. It represents the Step 8 of the ARMS Workflow within the Internal Joint Initiative.

  • This service aims to reformat and produce final output in variuos formats for human and machine2machine reading. It represents the Step 9 of the ARMS Workflow within the Internal Joint Initiative.