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Workshop 5
Automated visual plankton identification


Mark Benfield (LSU, USA)
Phil Culverhouse (Plymouth University, UK)

Invited Speaker:

Cabell Davis (Woods Hole Oceanographic Institution, USA)

Advanced pattern recognition techniques are being applied to plankton identification to automate sample specimen counting to generic level. These tools, for example Zoo/Phyto Image and Zooprocess/Plankton Identify offer fast semi-automatic identification. They are free and can analyse the output from a flatbed scanner (Zoo/phyto Image), Zooscan and FlowCAM instruments as well as from digital cameras and other sources. This workshop will introduce the concepts and methods used, with some practical experience in using the tools. Automation can allow many thousands of specimens to be analysed daily. This workshop is a must for those wishing to embrace this new technology.

The workshop is split into 4 blocks. The first block will present an overview of current practices (manual and machine), together with the shortcomings of manual identification (if you have a laptop, you can take part in an identification experiment). We then introduce the basics of machine identification (i.e., extracting measurements from plankton images and using spreadsheets to show how images may be grouped into clusters), using previously prepared data from a Zooimage or a Zooscan machine. The third block will cover issues of machine calibration and using it in routine sample analysis. We will close with a look what is happening in leading laboratories around the world, and what the future holds.

March 16, 2011

Phil Culverhouse and Mark Benfield
Automatic Visual Plankton Identification
(pdf, 3 Mb)

Cabell Davis (Invited)
In situ optical imaging of mesoplankton using the Video Plankton Recorder and digital holographic imaging (W5-7254)
(waiting for permission)

Lars Stemmann, Franck Prejger, Corinne Desnos, Marc Picheral and Gabriel Gorsky
Long term and spatial plankton monitoring with the ZooScan: Insights from a 6 years project at the Laboratory of Villefranche sur Mer and perspectives for a global network (W5-7009)
(pdf, 0.9 Mb)
Elvire Antajan,Stéphanie Lelièvre and Sandrine Vaz
Comparison of winter fish eggs distribution in Eastern Channel and Southern North Sea derived from traditional microscopy and digitalized images analysis identification (W5-7192)
(pdf, 1.7 Mb)
Harry Nelson, Ben Spaulding and Matthew Duplisea
New methods for using a continuous imaging particle analyzer (FlowCAM) for the analysis and classification of zooplankton (W5-7223)
(pdf, 1.3 Mb)
Catarina R. Marcolin and Rubens M. Lopes
Zooplankton biomass size spectra off Rio de Janeiro (Brazil) estimated by LOPC and Zooscan observations (W5-7334)
(pdf, 0.8 Mb)
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    Important Dates
    November 5 , 2010
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    December 15 , 2010
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