The main activity of the taggathon is to tag and annotate image processing / analysis tools and functions for radically improving the efficiency of searching a specific function you need.

Ideally the tagging is to be done directly with the final form of the web-tool. However since the 2013 taggathon is the first trial and since the web platform is not ready yet, we use a mock website prepared by Ricard, Virginie and Daniel to do the tagging. In parallel, we will discuss on the final form of the web-tool: its architecture, required features and administration.

Tags and links collected during the taggathon will be a part of the tags in the future web-tool.


  • Please bring your own laptop to the taggathon. We will have 25 LAN cable terminals to connect to the internet (+ WIFI as well).
  • If you have some example images / sequences for testing software packages and libraries, please bring them along.


Introduction and Tutorial

The taggathon starts with a brief introduction stating its aim and scope. This is followed by a brief tutorial on using the current web platform during the taggathon.


About half of the time during the taggathon you are asked to work on tagging tools / functions / plugins / classes. You could also freely exchange information, collaborate to work on example images and discuss on tags and annotations.

Currently, we have set no restriction on tags. Some of us already started discussion in the mail list forum, so we could decide what to do during one of the discussions.


For the development of the "web-tool" we want to discuss on several issues during the taggathon, so that the web platform becomes close to ideal for many.

We inserted several discussion slots during the event, hoping that all of you sit together and discuss over several topics.

  • Which Features do the Web-tool need?
    • Discuss which features are needed in the web-tool e.g. evaluation stars, rankings etc.
  • Ideal Architecture of the Web-Tool?
    • Would it be more like a wiki, or totally original web application?
  • "Open Tagging"
    • The tagging is intended to be open to public, but it needs some controls. How do we do that?
  • Next Steps.
    • After the Taggathon 2013, we step towards the construction of the web-tool. Having the experience of the first taggathon and from the results of discussions, we decide which are the next steps to take.

Shout Your Problem (SYP)

To increase verbal interactions, one or more of the participants raises one's hand and presents an image analysis topic and others respond with some suggestions and comments. It does not have to be a "problem". It could be something like:

  • I wonder if this tag is appropriate.
  • I wrote a class that does something like this. Does anyone know any other tool that does the similar, so that I can also tag it?
  • I have such an image sequence and I want to do such and such analysis. Do you know any function that solves my problem?
  • I recently saw a smart algorithm for such and such problem. Do you know if this is already implemented in CPP / Java / Matlab / R ?
  • I recently wrote this plugin. I want you to tag this! You could test it like this and this.

As this will be a rare gathering of algorithm designers / programmers/ image processing engineers / bioimage analysis experts, we expect that there will be exciting interactions.

Seven slots, each with 30 minutes duration, are planned during the taggathon. Please bring in your issues, do not miss this opportunity! We also hope closer interactions to happen after the SYP slots, such as to test tools for validations.


Oct. 9 (W)

  • 12:00 Introduction, Kota Miura
  • 12:20 Taggathon Tutorial, Ricard Delgado Gonzalo
  • 13:00 Tagging
  • 13:30 Lunch
  • 14:30 Shout Your Problem (SYP)
    • Chair: Sébastien Tosi
  • 15:00 Tagging
  • 16:00 Coffee Break
  • 16:30 Discussion: Which Features do the Web-tool need?
    • Chair: Perrine Paul-Gilloteaux
  • 17:00 Tagging
  • 18:00 Break
  • 18:30 SYP
    • Chair: Kota Miura
  • 20:30 Closing of the first day

Oct. 10 (T)

  • 9:00 SYP
    • Chair: TBA
  • 9:30 Tagging
  • 10:30 Coffee Break
  • 11:00 Discussion: Ideal Architecture of the Web-Tool?
    • Chair: Julien Colombelli
  • 12:00 Tagging
  • 13:00 Lunch
  • 14:00 SYP
    • Chair: Christoph Möhl
  • 14:30 Tagging
  • 15:30 Coffee Break
  • 16:00 Discussion: "Open Tagging"
    • Chair: TBA
  • 16:30 Tagging
  • 18:00 Break
  • 18:30 SYP
    • Chair: Simon F. Nørrelykke
  • 20:30 Closing of the second day

Oct. 11 (F)

  • 9:00 SYP
    • Chair: Christian Tischer
  • 9:30 Tagging
  • 10:30 Coffee Break
  • 11:00 Discussion: Next Steps
    • Chair: Kota Miura
  • 12:00 Tagging
  • 12:30 Lunch
  • 13:30 Tagging
  • 14:00 SYP
    • Chair: Thomas Pengo
  • 14:30 Tagging
  • 15:30 Coffee Break
  • 16:00 Tagging
  • 16:30 Closing Session: Summary of the Taggathon (30 minutes)

The schedule of the taggathon is in a google doc. See the link below.