Literature DB >> 34460314

Machine Learning for the Study of Plankton and Marine Snow from Images.

Jean-Olivier Irisson1, Sakina-Dorothée Ayata1, Dhugal J Lindsay2, Lee Karp-Boss3, Lars Stemmann1.   

Abstract

Quantitative imaging instruments produce a large number of images of plankton and marine snow, acquired in a controlled manner, from which the visual characteristics of individual objects and their in situ concentrations can be computed. To exploit this wealth of information, machine learning is necessary to automate tasks such as taxonomic classification. Through a review of the literature, we highlight the progress of those machine classifiers and what they can and still cannot be trusted for. Several examples showcase how the combination of quantitative imaging with machine learning has brought insights on pelagic ecology. They also highlight what is still missing and how images could be exploited further through trait-based approaches. In the future, we suggest deeper interactions with the computer sciences community, the adoption of data standards, and the more systematic sharing of databases to build a global community of pelagic image providers and users.

Entities:  

Keywords:  classifier; ecology; machine learning; marine snow; plankton; quantitative imaging

Mesh:

Year:  2021        PMID: 34460314     DOI: 10.1146/annurev-marine-041921-013023

Source DB:  PubMed          Journal:  Ann Rev Mar Sci        ISSN: 1941-0611


  6 in total

1.  Assessing Representation Learning and Clustering Algorithms for Computer-Assisted Image Annotation-Simulating and Benchmarking MorphoCluster.

Authors:  Simon-Martin Schröder; Rainer Kiko
Journal:  Sensors (Basel)       Date:  2022-04-04       Impact factor: 3.576

2.  A flow-through imaging system for automated measurement of ichthyoplankton.

Authors:  David R Williamson; Trond Nordtug; Frode Leirvik; Bjarne Kvæstad; Bjørn Henrik Hansen; Martin Ludvigsen; Emlyn John Davies
Journal:  MethodsX       Date:  2022-06-22

3.  Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf.

Authors:  Liam MacNeil; Dhwani K Desai; Maycira Costa; Julie LaRoche
Journal:  Sci Rep       Date:  2022-07-29       Impact factor: 4.996

Review 4.  Machine learning techniques to characterize functional traits of plankton from image data.

Authors:  Eric C Orenstein; Sakina-Dorothée Ayata; Frédéric Maps; Érica C Becker; Fabio Benedetti; Tristan Biard; Thibault de Garidel-Thoron; Jeffrey S Ellen; Filippo Ferrario; Sarah L C Giering; Tamar Guy-Haim; Laura Hoebeke; Morten Hvitfeldt Iversen; Thomas Kiørboe; Jean-François Lalonde; Arancha Lana; Martin Laviale; Fabien Lombard; Tom Lorimer; Séverine Martini; Albin Meyer; Klas Ove Möller; Barbara Niehoff; Mark D Ohman; Cédric Pradalier; Jean-Baptiste Romagnan; Simon-Martin Schröder; Virginie Sonnet; Heidi M Sosik; Lars S Stemmann; Michiel Stock; Tuba Terbiyik-Kurt; Nerea Valcárcel-Pérez; Laure Vilgrain; Guillaume Wacquet; Anya M Waite; Jean-Olivier Irisson
Journal:  Limnol Oceanogr       Date:  2022-06-30       Impact factor: 5.019

5.  Length, width, shape regularity, and chain structure: time series analysis of phytoplankton morphology from imagery.

Authors:  Virginie Sonnet; Lionel Guidi; Colleen B Mouw; Gavino Puggioni; Sakina-Dorothée Ayata
Journal:  Limnol Oceanogr       Date:  2022-06-15       Impact factor: 5.019

6.  FathomNet: A global image database for enabling artificial intelligence in the ocean.

Authors:  Kakani Katija; Eric Orenstein; Brian Schlining; Lonny Lundsten; Kevin Barnard; Giovanna Sainz; Oceane Boulais; Megan Cromwell; Erin Butler; Benjamin Woodward; Katherine L C Bell
Journal:  Sci Rep       Date:  2022-09-23       Impact factor: 4.996

  6 in total

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