ReLTER: An R interface for Environmental Observation in Long Term Ecological Research

In 2018, LTER-Europe became part of the ESFRI (European Strategy Forum for Research Infrastructures) roadmap as eLTER Research Infrastructure (RI). The eLTER-RI focuses on long-term, site-based research and monitoring in the fields of ecosystem, biodiversity, critical zone, and social ecology. In this sense, eLTER RI has to deal with a vast amount of diverse, long-term data through ecoinformatics processes, including the collection, processing, analysis, synthesis, and transfer of data. This article introduces a new R package, ReLTER, simplifying user interaction with web data and the Dynamic Ecological Information Management System-Site and Dataset Registry (DEIMS-SDR). The paper describes the functionality of the ReLTER package and its potential within the global ecological community.

Read the publication by Alessandro Oggioni, Micha Silver, Paolo Tagliolato, Arnon Karnieli

ReLTER: An R interface for environmental observation in long term ecological research -  https://doi.org/10.1016/j.ecoinf.2024.102915

Highlights

• eLTER-RI requires transparent access to data from heterogeneous archives.
• The ReLTER package was required to support eLTER-RI.
• The ReLTER interfaces with DEIMS-SDR (https://deims.org).
• Features, use cases, and sample code snippets are presented.

Abstract

Ecological datasets are inherently complex, heterogeneous, and often span different time series. The links between spatial and temporal data and ecological/environmental science are framed in the discipline of ecoinformatics. The rapid growth of ecoinformatics has led to a demand for software collections specifically designed for environmental data analysis. This article introduces a new R package, ReLTER, simplifying user interaction with web data and the Dynamic Ecological Information Management System-Site and Dataset Registry (DEIMS-SDR). This package was motivated by users within the eLTER community and the emerging eLTER Research Infrastructure Management System (eLTER-RI), as well as other stakeholders to facilitate interaction with data and tools provided by eLTER-RI. Furthermore, DEIMS-SDR is currently used as a site catalogue by European environmental research projects, and has the potential to develop as the a reference for the EU ecological site registry.

The ReLTER package, written in the R language, is based on several auxiliary packages that enrich the data collected within the Long-Term Ecological Research (eLTER) network with data from other repositories. More than forty functions have been implemented that allow the retrieval of species occurrence data from third-party online networks, such as GBIF, iNaturalist, and OBIS, as well as earth observation images from various internet archives, and to harmonize the downloaded data (in terms of structure, semantics, taxonomy, etc.) for combining and linking them in subsequent analyses. This paper describes the functionality of the ReLTER package and its potential within the global ecological community.