About Biodiversity Lab VRE About Biodiversity Lab VRE

The Biodiversity Lab is designed to provide a collection of applications that allow scholars to perform complete experiments involving single individuals or groups of marine species. This VRE allows to perform the following tasks:

  • Inspect species maps and occurences data
  • Inspect species descriptions and characteristics
  • Produce a species distribution map by means of either an expert system (AquaMaps) or a machine learning model
  • Analyse species observation trends
  • Cluster occurrence data
  • Perform analysis of climatic changes and of its effect on species distribution
  • Produce GIS maps for geo-spatial datasets
  • Discover Taxa names
  • Estimate similarities among habitats

In addition to the basic functionality, as a workspace for sharing objects of interest, a social networking area for supporting the discussions among members and a user management facility for managing membership, this VLab is specifically equipped with the following capabilities:

  • Species Data Discovery: a facility enabling users to discover and manage species data products (occurrence data and taxonomic data) from a number of heterogeneous providers (including GBIF and speciesLink for occurrences data, as well as ASFIS, BrazilianFlora, CatalogueOfLife, IRMNG, IT IS, NCBI, WoRDSS, WoRMS for taxonomic data) in a seamless way. Once discovered, objects can be stored in the workspace for future uses;
  • Species View: a facility enabling users to discover and browse species products (namely species distribution maps). This facility supports discovery mechanisms ranging from simple search based on species names to very specific search criterion, and it offers a comprehensive set of products visualisation approaches
  • Geospatial Data View: a facility enabling users to discover and visualize GIS layers, e.g. species distribution maps that have been generated and published. This facility relies on the GeoExplorer portlet, and makes it possible to effectively exploit the generated maps and to perform comparisons and analysis of the diverse distributions by enabling map overlay, transects production and values inspection
  • Data Analytics at Scale: a facility enabling users to benefit from the offerings of the DataMiner service and interactively execute a large array of data analytics tasks on datasets. These algorithms range from approaches to produce a species distribution map by means of either an expert system or a machine learning model to approaches for analysing climatic changes and their effects on species distribution, approaches for estimating similarities among habitats, and approaches for stock assessment
  • Algorithm Importer: a facility enabling users to transform R-based algorithms and methods into DataMiner algorithms, i.e. methods that can be executed by the data analytics platform. This transformation assists in annotating the code, thus making it possible for Data Miner to properly execute it
  • Data Catalogue: a facility enabling users to access the BlueBRIDGE products catalogue containing, fot he time being, 48.2k species distribution maps
  • R Studio as-a-Service: a facility enabling users to access a fully-fledged RStudio® working environment directly from the VRE. This environment is integrated with the rest of VRE \ VLab facilities enabling the usage of files from the workspace and the storage of new files in the workspace 
  • Semantic-based Data Discovery: a facility enabling users to search and browse the MarineTLO Data Warehouse

Enter Biodiversity Lab VRE Enter Biodiversity Lab VRE

Access the Biodiversity Lab VRE with your D4Science Gateway credentials.

Create an account Create an account

If you don't have an account you should first create one on the D4Science Gateway to access the VRE.

About BlueBRIDGE About BlueBRIDGE

This VRE has been created in the contest of the BlueBRIDGE project. BlueBRIDGE supports capacity building in interdisciplinary research communities actively involved in increasing scientific knowledge about resource overexploitation, degraded environment and ecosystem with the aim of providing a more solid ground for informed advice to competent authorities and to enlarge the spectrum of growth opportunities as addressed by the Blue Growth Societal Challenge.
BlueBRIDGE capitalizes on past investments and uses the proven D4Science infrastructure that counts over 2000 users, integrates more than 50 repositories, executes around 20,000 models & algorithms per month and provides access to over a billion records in repositories worldwide, with 99,7% service availability. 
For more information about the project please visit us at http://www.bluebridge-vres.eu/