Josep M Serra-Diaz
Research Assistant Professor
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Articles (16)
<scp>occTest</scp>: An integrated approach for quality control of species occurrence data
Aim Species occurrence data are valuable information that enables one to estimate geographical distributions, characterize niches and their evolution, and guide spatial conservation planning. Rapid increases in species occurrence data stem from increasing digitization and aggregation efforts, and citizen science initiatives. However, persistent quality issues in occurrence data can impact the accuracy of scientific findings, underscoring the importance of filtering erroneous occurrence records in biodiversity analyses. Innovation We introduce an R package, occTest, that synthesizes a growing open‐source ecosystem of biodiversity cleaning workflows to prepare occurrence data for different modelling applications. It offers a structured set of algorithms to identify potential problems with species occurrence records by employing a hierarchical organization of multiple tests. The workflow has a hierarchical structure organized in test Phases (i.e. cleaning vs. testing) that encompass different testBlocks grouping different testTypes (e.g. environmental outlier detection ), which may use different testMethods (e.g. Rosner test, jacknife, etc.). Four different testBlocks characterize potential problems in geographic, environmental, human influence and temporal dimensions. Filtering and plotting functions are incorporated to facilitate the interpretation of tests. We provide examples with different data sources, with default and user‐defined parameters. Compared to other available tools and workflows, occTest offers a comprehensive suite of integrated tests, and allows multiple methods associated with each test to explore consensus among data cleaning methods. It uniquely incorporates both coordinate accuracy analysis and environmental analysis of occurrence records. Furthermore, it provides a hierarchical structure to incorporate future tests yet to be developed. Main conclusions occTest will help users understand the quality and quantity of data available before the start of data analysis, while also enabling users to filter data using either predefined rules or custom‐built rules. As a result, occTest can better assess each record's appropriateness for its intended application.
Year:
2024
Collaborators (44)
Daniel Park
Assistant Professor
Purdue University
Xiao Feng
-
Hans Henrik Bruun
associate professor
University of Copenhagen
Chaeho Byun
Assistant Professor
Andong National University
Lidong Mo
ETH Zürich
Joseph Burger
Assistant Professor
University of Kentucky
Raúl García-Valdés
Profesor Ayudante Doctor
Universidad Rey Juan Carlos - Campus de Móstoles
Wolf Eiserhardt
Associate Professor
Aarhus University
John Poulsen
Adjunct Professor
Duke University
Yadvinder Malhi
University of Oxford
Bogdan Jaroszewicz
Head of the Station/Professor
University of Warsaw
Jane Catford
King’s College London
Jens-Christian Svenning
Professor
Aarhus University
Cory Merow
-
José María Iriondo
Full Professor
Universidad Rey Juan Carlos Escuela Superior de Ciencias Experimentales y Tecnología
Jamie Michael Kass
Associate Professor
Tohoku University
Naia Morueta-Holme
Københavns Universitet
Emil Cienciala
Global Change Research Institute CAS
Clara Antón-Fernández
Research Professor
Norwegian Institute of Bioeconomy Research
Erica Newman
-
Robert Anderson
The Graduate Center, CUNY
Nadejda Soudzilovskaia
Full Professor
Hasselt University
Laura Dee
Assistant Professor of Large-Scale Ecology
University of Colorado Boulder
Junho Lee
Assistant Professor
Louisiana State University
Adam Wilson
Associate Professor
State University of New York at Buffalo
Simon Hart
Lecturer
University of Queensland
Robert Peet
Professor
University of North Carolina at Chapel Hill
Sebastian Kepfer Rojas
Københavns Universitet
Jean‐Claude Gégout
Université de Lorraine
Adam R. Martin
-
Vivian Kvist Johannsen
Københavns Universitet
Helder Viana
Instituto Politécnico de Leiria
Franziska Schrodt
Assistant Professor
University of Nottingham
Brian J. Enquist
-
Roberto Cazzolla Gatti
Associate Professor
University of Bologna
Carlos Lara-Romero
Assistant Professor
Universidad Rey Juan Carlos
Tianhua He
Murdoch University
Vanessa Minden
Vrije Universiteit Brussel
Eurídice Nora Honorio Coronado
University of St. Andrews
Stanisław Miścicki
Prof., Head of Department
Szkola Glowna Gospodarstwa Wiejskiego
Hans ter Steege
Professor by Special Appointment
Utrecht University
Miroslav Svoboda
Professor
Czech University of Life Sciences Prague
Tommaso Jucker
University of Bristol
Craig D. Allen
-

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