This service aims to compute a list of taxa IDs detected from metabarcoding sequences of environmental DNA (eDNA) samples. This service contains eight substeps (1.1 to 1.8) implemented as a unique step. The eight substeps perform (1) sequencing error correction (using BayesHammer-SPAdes); (2) pairwise alignment, (3) pre-filtering, (4) dereplication, (5) attribute filtering, (6) clustering and OTU tab-producer (using OBITools); (7) taxonomic assignment (using blastn); (8) OTUs table generator. Several types of eDNA samples can be processed (i.e. water, feces, soil). It represents the Step 1 of the Metabarcoding Workflow within the Internal Joint Initiative.

This service aims at creating a stack of coregistered multi-spectral raster images. It groups two seasons images (summer and autumn) and stack them to obtain a unique image at native resolution (2 meters) by using the Worldview-2 sensor. It represents the Step 5 of the Ailanthus Workflow within the Internal Joint Initiative.

This service includes an image portal and webservices application to store and visualize images linked to occurrence records. Some tools are available to measure, zoom, calibrate or download the image.

This service aims at creating a vector from the coordinates in the “Pop_troph_SIA.csv” file and convert it into a shapefile. It represents the Step 3.1 of the Crustaceans Workflow within the Internal Joint Initiative.

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.

The package has been designed to characterize the realized niche of the species by interfacing R software with GRASS geographical information system in order to overcome issues when working with large datasets (i.e., wide areas or high resolution). This package uses classes defined in rgrass7 package to deal with spatial data and to interface R and Grass.

Document repository of scientific publications of research carried out at (or related to) Doñana.

An extensible framework that includes algorithms for presence-background (Maxent) and presence-absence (GAM, GLM, MARS, SVM, RF) for developing species distribution models using individual and community-based approaches, generate ensembles of models, calibrate and evaluate the models, and predict species potential distributions in space and time. For more information, please check the paper Naimi, B., Araujo, M.B. (2016) https://doi.org/10.1111/ecog.01881.

A collection of R functions to do purely presence-only species distribution modeling with isolation forest (iForest) and its variations such as Extended isolation forest and SCiForest.

This service aims to make accessible and searchable the data collected in real-time (6 hours - update interval) by a network of micro-stations deployed in the oak groves of Sierra Nevada within the framework of the Sierra Nevada Global Change Observatory.