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EMBL BioImage Data Analysis



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How to quickly estimate Standard Deviation of Point-Spread-Function in #ImageJ ... by @katpyxa
About 1 day, 17 hours ago by: Kota Miura (@cmci_)

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RT @egonwillighagen: "Detection of Molecules (DoM) plugin for ImageJ"
About 1 day, 17 hours ago by: Kota Miura (@cmci_)

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RT @ScopeKurt: Janelia Farm has a pretty cool looking job for an imaging data scientist:
About 1 day, 21 hours ago by: Kota Miura (@cmci_)

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RT @EMBLEvents: Join our team as a Course and Conference Officer! Application open til 22 Jan!
About 2 days, 21 hours ago by: Kota Miura (@cmci_)

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RT @dwaithe: The results of survey I put together for #NEUBIAS: Same message as:
About 3 days, 2 hours ago by: Kota Miura (@cmci_)

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@dn_mason @jytinevez it's not easy to find a short form as such, like nbs2017 collides with "Naples Boat Show 2017" ... so #NEUBIAS
About 3 days, 17 hours ago by: Kota Miura (@cmci_)


NeuBIAS Started!

As of May 3rd 2016, supported by COST grant, NeuBIAS officially launched for creating a stronger and broader network among bioimage analysts: read "EuBIAS Manifesto (2013, DOI:10.5281/zenodo.18047)" for more details about our initial motivation. The official document stating our activities is here (PDF)

BIAS has been a small group, and EuBIAS has been a bit larger but now with NeuBIAS, it's big!

BIAS 2016

EMBL Master Course for Bioimage Data Analysis (BIAS2016): Registration is now open, deadline on April 15th.

Official Website:

Course Wiki: BIAS2016 wiki

Published: Bioimage Data Analysis

A new book is now online: “Bioimage Data Analysis”. The instructors of EMBL Bioimage Data Analysis coauthored 10 chapters on practical techniques for analyzing image data in biology. E-books are downloadable free of charge from the following link.

Bioimage Data Analysis (2016), Wiley-VCH

Triweekly CMCI image analysis seminar launched

The CMCI seminar has been either spontaneous or took a form of mini-symposium, but now in a new format.

Every three weeks, seminar member gathers and two of them present image analysis problems / solutions or reads a paper. For more details and the schedule, see this page.

BIAS 2014 wiki page

The 2nd “EMBL Master course on BioImage Data Analysis” will be in May. I , Sebastien Tosi (Barcelona) and Perrine Paul-Gilloteaux will be organizing the course. Here is the wiki page for this year.

I added biography of invited speakers, so please check if you are interested! By the way, we abbreviate the course title as “BIAS2014”.

EuBIAS 2013, Successful!

 EuBIAS 2013, Barcelona The European Bioimage Analsis Symposium (EuBIAS) 2013 ended successfully! The meeting was with many active discussions, the course impressed students, the taggathon (we invented this event) generated a new type of bioimage analysis tool aggregator Great developers, great analysts, great users! Community, community, community!

Nature Physics Sept. 2013 Cover Page

The ImageJ plugin "Temporal-Color Code" was used for the analysis of the contraction of actomyosin gel and now in the cover page of Nature Physics, September 2013 issue. D. L. Taylor's “Solation-Contraction Coupling” hypothesis now on the move.

Thanks to José Alvarado for his kind acknowledgement and a big applause for his successful publication!


For strengthening the bioimage analysis community, we organize the first EuBIAS meeting in Barcelona. For those of you with problems such as:

  • Which tool is appropriate for my question?
  • Who should I ask my very specific question about image analysis?
  • I want to increase my skill, but I do not know how.
  • I am a developer and want to know more demands of biologists.
  • I became an image analysts specialist. Is there a community for me?

Join the meeting and get to know top-developers, leading image analysts and biologist with similar problems!

More details and registration:

The 3rd CMCI symposium, July 5th, 2013

We will have the third CMCI image analysis symposium on July 5th (Fri), 2013. See more details.

BIAS 2013 wiki page

There will be “EMBL Master course on BioImage Data Analysis” in May, and I am preparing for this course with Christoph Moehl (Bonn) and Sebastien Tosi (Barcelona). For the course we want to be interactive so we now have a wiki for the course:

We abbreviate the course title “BIAS 2013”. Registration deadline is in February, and we will be waiting for many applications!

start.txt · Last modified: 2016/05/25 08:45 by kota