1. Can machine learning help us make better decisions about a changing planet?In this paper, we illustrate and discuss the potential of a promising corner of machine learning known as deep reinforcement learning (RL) to help tackle the most challenging conservation decision problems. We provide a conceptual and technical introduction to deep RL as well as annotated code so that researchers can adopt, evaluate and extend these approaches.2. RL explicitly focuses on designing an agent who interacts with an environment that is dynamic and uncertain. Deep RL is the subfield of RL that incorporates deep neural networks into the agent. We train deep RL agents to solve sequential decision-making problems in setting fisheries quotas and managing ecological tipping points.3. We show that a deep RL agent is able to learn a nearly optimal solution for the fisheries management problem. For the tipping point problem, we show that a deep RL agent can outperform a sensible rule-of-thumb strategy. 4. Our results demonstrate that deep RL has the potential to solve challenging decision problems in conservation. While this potential may be compelling, the challenges involved in successfully deploying RL-based management to realistic scenarios are formidable-the required expertise and computational cost may place these applications beyond the reach of all but large, international technology firms. Ecologists must establish a better understanding of how these algorithms work and fail if we are to realize this potential and avoid the pitfalls such a transition would bring. We ultimately set forth a research framework based on well-posed, public challenges so that ecologists and computer scientists can collaborate towards solving hard decision-making problems in conservation.
A familiar and growing challenge in ecological and evolutionary research is that of establishing consistent taxonomy when combining data from separate sources. While this problem is already well understood and numerous naming authorities have been created to address the issue, most researchers lack a fast, consistent, and intuitive way to retrieve taxonomic names. We present taxadb R package which creates a local database, managed automatically from within R, to provide fast operations on millions of taxonomic names. taxadb provides access to established naming authorities to resolve synonyms, taxonomic identifiers, and hierarchical classification in a consistent and intuitive data format. taxadb makes operation on millions of taxonomic names fast and manageable.
Harnessing the NEON data revolution to advance open environmental science with a diverse and data-capable community. Ecosphere 12(12):e03833.
0Prioritizing regions for conservation is essential for effectively allocating limited 1 1 conservation resources. One of the most common approaches to prioritization is identifying 1 2 regions with the highest biodiversity, or hotspots, typically using global range map data. Range 1 3 maps are readily available at large scales for an array of taxa, but are also known to differ from 1 4
Understanding patterns and drivers of species distribution and abundance, and thus biodiversity, is a core goal of ecology. Despite advances in recent decades, research into these patterns and processes is currently limited by a lack of standardized, high‐quality, empirical data that span large spatial scales and long time periods. The NEON fills this gap by providing freely available observational data that are generated during robust and consistent organismal sampling of several sentinel taxonomic groups within 81 sites distributed across the United States and will be collected for at least 30 years. The breadth and scope of these data provide a unique resource for advancing biodiversity research. To maximize the potential of this opportunity, however, it is critical that NEON data be maximally accessible and easily integrated into investigators' workflows and analyses. To facilitate its use for biodiversity research and synthesis, we created a workflow to process and format NEON organismal data into the ecocomDP (ecological community data design pattern) format that were available through the ecocomDP R package; we then provided the standardized data as an R data package (neonDivData). We briefly summarize sampling designs and data wrangling decisions for the major taxonomic groups included in this effort. Our workflows are open‐source so the biodiversity community may: add additional taxonomic groups; modify the workflow to produce datasets appropriate for their own analytical needs; and regularly update the data packages as more observations become available. Finally, we provide two simple examples of how the standardized data may be used for biodiversity research. By providing a standardized data package, we hope to enhance the utility of NEON organismal data in advancing biodiversity research and encourage the use of the harmonized ecocomDP data design pattern for community ecology data from other ecological observatory networks.
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