An algorithm competition for automatic species identification from herbarium specimens

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningfagfællebedømt

  • Damon P. Little
  • Melissa Tulig
  • Kiat Chuan Tan
  • Yulong Liu
  • Belongie, Serge
  • Christine Kaeser-Chen
  • Fabián A. Michelangeli
  • Kiran Panesar
  • R. V. Guha
  • Barbara A. Ambrose

Premise: Plant biodiversity is threatened, yet many species remain undescribed. It is estimated that >50% of undescribed species have already been collected and are awaiting discovery in herbaria. Robust automatic species identification algorithms using machine learning could accelerate species discovery. Methods: To encourage the development of an automatic species identification algorithm, we submitted our Herbarium 2019 data set to the Fine-Grained Visual Categorization sub-competition (FGVC6) hosted on the Kaggle platform. We chose to focus on the flowering plant family Melastomataceae because we have a large collection of imaged herbarium specimens (46,469 specimens representing 683 species) and taxonomic expertise in the family. As is common for herbarium collections, some species in this data set are represented by few specimens and others by many. Results: In less than three months, the FGVC6 Herbarium 2019 Challenge drew 22 teams who entered 254 models for Melastomataceae species identification. The four best algorithms identified species with >88% accuracy. Discussion: The FGVC competitions provide a unique opportunity for computer vision and machine learning experts to address difficult species-recognition problems. The Herbarium 2019 Challenge brought together a novel combination of collections resources, taxonomic expertise, and collaboration between botanists and computer scientists.

OriginalsprogEngelsk
Artikelnummere11365
TidsskriftApplications in Plant Sciences
Vol/bind8
Udgave nummer6
ISSN2168-0450
DOI
StatusUdgivet - 1 jun. 2020
Eksternt udgivetJa

Bibliografisk note

Publisher Copyright:
© 2020 Little et al. Applications in Plant Sciences is published by Wiley Periodicals, LLC on behalf of the Botanical Society of America

ID: 301822923