Seamless access to Norwegian marine data

Institute of Marine Research

Mesozooplankton (MesoZ) FlowCam Plankton Images version_0.1

Recommended citation:
Terje Berge, Magnus Reeve and Hyeongji Kim (2022) Mesozooplankton (MesoZ) FlowCam Plankton Images version_0.1 https://doi.org/10.21335/NMDC-1805578916
To cite this dataset use the following:
Usage :
Abstract
Work in progress (last modified 2022-03-31). Manually sorted and annotated mesozooplankton images obtained using a FlowCam Macro Yokogawa Fluid Imaging Technologies (camera and microscope system) equipped with a 0.5x objective lens and a 5000µm deep field-of-view flowcell (magnification = 12.5). The size of one pixel is ~9.05 µm. The images have been sorted into a taxonomical folder structure according to phylogeny (e.g. Family – Order – Genus - Species). This version (last modified 2022-03-31) is incomplete in the phylogenetic organization of the folders. Plankton sizes range from 150-3000µm ABD (Area Based Diameter). The plankton samples were WP2 plankton net hauls (180 µm mesh). Samples were fixed in 4% formaldehyde, and subsequentially diluted in freshwater during imaging. Samples originated mostly from the North-Atlantic Ocean, i.e. Norwegian Sea and North Sea. A few samples originated from Antarctica. This version of the dataset needs further improvement (number of images in each class) in order to train a machine learning model and apply it for the classification of real plankton samples. As a preliminary data-set it was intended to investigate machine-learning algorithms. There may be misplaced images and misannotations.
Scientific keywords:
EARTH SCIENCE> BIOSPHERE> AQUATIC ECOSYSTEMS> PLANKTON
Key words:
Plankton, Preliminary dataset, Microplankton, FlowCam, Image Recognition
Data downloads
Type Description URL
GET DATA ftp://ftp.nmdc.no/nmdc/IMR/Plankton/MesoZ.zip
-64.4
66.99384
0.0
11.983918
Entry ID
IMR_2022_MesoL
Entry Title
Mesozooplankton (MesoZ) FlowCam Plankton Images version_0.1
Data Set Citation List
Dataset Creator Dataset Title Dataset Release Date Dataset Publisher Dataset DOI Online Resource
Terje Berge, Magnus Reeve and Hyeongji Kim Mesozooplankton (MesoZ) FlowCam Plankton Images version_0.1 2022-12-08T00:00:00:00Z Institute of Marine Research 10.21335/NMDC-1805578916 http://metadata.nmdc.no/metadata-api/landingpage/983e1d532e26ecc4d3c920338ef2601e
Personnel List
Role First Name Last Name Email Middle Name
DIF Author Arnfinn Morvik arnfinn.morvik@hi.no
Investigator Terje Berge
Technical Contact Magnus Kim Reeve Hyeongji
Parameters List
Category Topic Term Variable Level 1
EARTH SCIENCE BIOSPHERE AQUATIC ECOSYSTEMS PLANKTON
ISO Topic Category List
Oceans
Keywords List
Plankton,Preliminary dataset,Microplankton,FlowCam,Image Recognition
Temporal Coverage
Start Date Stop Date
2019-03-15 2020-10-12
Data Set Progress
Complete
Spatial Coverage
Location List
Location Category Location Type Location Subregion1 Location Subregion2
Ocean Atlantic Ocean North Atlantic Ocean North Sea
Ocean Atlantic Ocean North Atlantic Ocean Norwegian Sea
Ocean Southern Ocean
Project List
Access Constraints
unrestricted
Originating Center
Institute of Marine Research
Data Center List
Data Center Name Personnel Data Center URL
Institute of Marine Research, Norwegian Marine Data Centre, Norway Institute of Marine Research, Norwegian Marine Data Centre, Norway Datacenter Arnfinn Morvik arnfinn.morvik@hi.no
NO/IMR Institute of Marine Research Originating institution Terje Berge http://www.imr.no
Distribution List
Distribution Media Distribution Format
ftp zip
Reference List
Summary
Work in progress (last modified 2022-03-31). Manually sorted and annotated mesozooplankton images obtained using a FlowCam Macro Yokogawa Fluid Imaging Technologies (camera and microscope system) equipped with a 0.5x objective lens and a 5000µm deep field-of-view flowcell (magnification = 12.5). The size of one pixel is ~9.05 µm. The images have been sorted into a taxonomical folder structure according to phylogeny (e.g. Family – Order – Genus - Species). This version (last modified 2022-03-31) is incomplete in the phylogenetic organization of the folders. Plankton sizes range from 150-3000µm ABD (Area Based Diameter). The plankton samples were WP2 plankton net hauls (180 µm mesh). Samples were fixed in 4% formaldehyde, and subsequentially diluted in freshwater during imaging. Samples originated mostly from the North-Atlantic Ocean, i.e. Norwegian Sea and North Sea. A few samples originated from Antarctica. This version of the dataset needs further improvement (number of images in each class) in order to train a machine learning model and apply it for the classification of real plankton samples. As a preliminary data-set it was intended to investigate machine-learning algorithms. There may be misplaced images and misannotations.
Related URL List
URL Content Type URL
GET DATA ftp://ftp.nmdc.no/nmdc/IMR/Plankton/MesoZ.zip
Originating Metadata Node
Norwegian Marine Datacentre
Metadata Name
CEOS IDN DIF
Metadata Version
9.7.1
DIF Creation Date
2022-12-08T00:00:00:00Z
Use Constraints
CC BY 4.0
983e1d532e26ecc4d3c920338ef2601e.xml
No Spatial coverage