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data analysis

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  • One of the virtual laboratories developed by LifeWatch Belgium is the Belgian LifeWatch eLab. This online application allows users to standardise, analyse and visualise their data, making use of web services built on top of internal and external reference databases. The ultimate goal of LifeWatch is to set up a network for data exchange and data analysis through web services. Web services are systems that allow communication between two computers over the web, and allow the user to access the most recent and up-to-date information directly from within other applications. Within LifeWatch Belgium, several web services are available to standardise, analyse and visualise your data, and to extract additional data from several sources. The user can select several data services (taxonomic, geographic, thematic, etc.) and run them successively through a straightforward online user interface. You can also use the LifeWatch.be web services in a concatenated way, i.e. the output of one web service is the input for the next web service. Establishing such workflows helps solving (complicated) biological questions. Several use cases demonstrate the use of the LifeWatch web services. So as to facilitate the use of the LifeWatch web services, several applications and tools were documented in use cases and tutorials. These can be found on the links below, as well as on the specific websites of software packages and Github repositories. The Belgian LifeWatch E-Lab online application allows users to standardize, analyze and visualize their data, making use of web services built on top of internal and external reference databases. A user can select several data services (taxonomic, geographic, thematic, etc.) and run them successively through a straightforward user interface. As explained in the user guide, the LifeWatch.be web services can be used in a concatenated way, i.e. the output of one web service is the input for the next web service.

  • This interactive online tool gives access to all sensor data collected in the framework of the Flemish LifeWatch project, and provides an interface to explore and analyze these data. Several thematic portals have been set up as part of the Data Explorer: - Underway Data Explorer - Station Data Explorer - Zooplankton Data Explorer - GPS Bird Tracking Data Explorer - Fish Telemetry Data Explorer - Batcorder Data Explorer - CPOD (marine mammals) Data Explorer Within the RShiny LifeWatch Data Explorer, five general sections are available to explore, plot, visualize and download data. Some of the more recent data is temporarily under moratorium and therefore protected by password access. The LifeWatch Data Explorer is built using RShiny server, Leaflet, ggplot2, PLotly, Dygraph and DataTables. The system is able to query MSSQL, PostgreSQL, Geoserver (WFS) and MongoDB servers.

  • It shows information collected on the state of biodiversity and natural processes in the different areas collected according to the ICTS Monitoring Program.

  • The SCAR Antarctic Biodiversity Portal (biodiversity.aq) is an international effort that seeks to increase our knowledge and understanding of Antarctic and Southern Ocean biodiversity. It is a community of researchers, data custodians and developers from around the world that supports the mobilization publication, retrieval and analysis of Antarctic and Southern Ocean biodiversity data in a free and open manner in line with the Antarctic treaty and the FAIR data Principles (Findable, Accessible, Interoperable, Reusable). The main aim is to create an information ecosystem of various data bases, data systems, web services, tools, etc. that can be used by anyone with an interest in Antarctic and Southern Ocean biodiversity. Biodiversity.aq is an international initiative of the Scientific Committee on Antarctic Research (SCAR). It finds it roots in the Census of Antarctic Marine Life and started in 2005. The central facilities are hosted by the Royal Belgian Institute for Natural sciences (RBINS, www.naturalsciences.be) and the Belgian Biodiversity Platform (BBPf, www.biodiversity.be).

  • Marine Biology Station in Piran at National Institute of Biology, partner in LifeWatch Slovenia monitors the waves and surficial currents assessment as well as a potential resource for monitoring the impact of wave energy on the marine environment with the help of High Frequency radar (HF Radar). Co-financed by the IPA ADRIATIC (EU) project ”Strengthening common reaction capacity to fight sea pollution of oil, toxic and hazardous substances in Adriatic Sea – HAZADR” (http://www.hazadr.eu/) two High Frequency (HF) radar systems WERA were setup along the coast of the Gulf of Trieste. The National Institute of Biology, Marine Biology Station (NIB) in collaboration with the Slovenian Environmental Agency (ARSO) placed a 12 channel system in the town of Piran (Slovenia), while the Istituto Nazionale di Oceanografia e di Geofisica Sperimantale (OGS) set up its system in Aurisina (Italy). They operate in pair thus covering the Gulf of Trieste and the Bay of Piran. The near real-time results are available to public, local stakeholders and the scientific community in a graphical and digital form.

  • This service aims at crossing the datacube with a geographic layer in order to compute incidence information per zone. This information is extracted based on the geolocation code. It includes a tool to visualize the outputs rasters. It represents the Step 5 of the Biotope vulnerability Workflow within the Internal Joint Initiative.

  • The LifeWatch Italy national node has realised the Alien and Invasive Species Virtual Research Environment (Alien Species VRE) for supporting researchers to address basic and applied studies on ecosystem vulnerability to alien species arrival. The Alien Species VRE allows to: - access and download harmonised data on the national distribution of species of fauna and flora belonging to different habitats (marine, fresh and transitional waters, and terrestrial) published through the LifeWatch Italy Data Portal and distributed by the LifeWatch ERIC Metadata Catalogue; - upload their own datasets structured according to the LifeWatch Italy Data Schema in order to execute the service included in the VRE.

  • pydov is a Python package to query and download data from Databank Ondergrond Vlaanderen (DOV). It is hosted on GitHub and development is coordinated by Databank Ondergrond Vlaanderen (DOV). DOV aggregates data about soil, subsoil and groundwater of Flanders and makes them publicly available. Interactive and human-readable extraction and querying of the data is provided by a web application, whereas the focus of this package is to support machine-based extraction and conversion of the data.

  • rgbif is an R package to search and retrieve data from the Global Biodiverity Information Facilty (GBIF). rgbif wraps R code around the GBIF API to allow you to talk to GBIF from R.

  • In the marine domain, LifeWatch provides data services for a large and broad user community dealing with a variety of data types. Activities include provision of data tools and services for taxonomic, ecological, omics, biogeographic, environmental and biological observation data. Tools for data archiving, access, quality control, standardization, harmonization, analysis and publication are integrated in a Marine Virtual Research Environment (Marine VRE). In this regard, the LifeWatch Marine VRE aspires to be the transparent gateway to access, analyze and develop marine data resources. The Marine VRE is built on three components: - Through the "Access" page, the user can retrieve marine biodiversity and ecosystem data. For all resources listed, a description of the data on offer is available and connecting web links are displayed. - Arriving at the "Analyze" page, one can find applications and tools for advanced calculations, modelling and data processing. Through these environments, state-of-the-art workflows and modelling approaches are shared and accessible to all. - Finally, the "Develop" page allows the user to access data services, as well as develop their own. Documented R scripts and tutorials, outputs from expert workshops and detailed methodological workflow of certain data products or scientific publications are only a few examples of how Marine VRE puts the sharing of data and expertise to practice. Now, a marine researcher can access a multitude of available data, find the appropriate tools for analysis, apply and develop existing expertise through data services. Facilitating a scientist's pursuit of knowledge, the LifeWatch Marine VRE contributes to high quality marine research.