On arrival to EMBL Heidelberg, please go to the reception at the main entrance, and register as a EMBL guest. You will receive a Guest ID card. Please also ask the reception to call Kota Miura (ex 8404).

If you could not find me, then please go to the room 6.51a directly.

Starts from 14:00, on March 15, 2010 (Mon) @ Room6.51a, EMBL Heidelberg. Aim is to introduce oneself to each other. Other schedule for the hackathon is still open.

Takes 20 - 30 minutes on foot.

Shuttle bus is available during morning and evening.
http://www.embl.de/aboutus/contact/shuttle/embl_shuttle.pdf

For going downtown, please visit
http://www.embl.de/aboutus/contact/shuttle/index.html

• lunch will be at the canteen, 12:00 Mon-Fri.
• in the room you should find coffee, tee and some small treats.
• dinner is at 7pm in the small canteen (also called old canteen).
• for LAN connection, please ask Kota. Be prepared with MAC addresses of both LAN and WLAN adapters.

Fiji/ImageJ hands-on tutorials

7/3 (Wed, 2:30pm-5:00pm in Room 202): *Image segmentation workshop*

This hands-on tutorial will demonstrate how to use Fiji plugins for image segmentation in biological images. Examples included:

1. 3D confocal stacks
2. 2D particle counting
3. electron microscopy segmentation

The algorithms will be: SIOUX, Level Sets, and a trainable machine learning plugin.

Instructors: Arganda/Frise/Longair/Schindelin

18/3 (Thu, 2:30pm-5:00pm in Room 202): Image registration workshop

We'll demonstrate how to stitch large montages of images using phase-correlation (fast) and feature extraction (very precise). For both linear and non-linear (warping).

Instructors: Saalfeld/Preibisch/Arganda/Cardona

please bring a laptop with you, and before you are arriving, please install FIJI.

Installation is not difficult. Just download and unpack. Instructions are in below.

http://pacific.mpi-cbg.de/wiki/index.php/Downloads

If you are using Windows and not sure if your laptop is 32-bit or 64-bit, please write to me.

For MacOSX 1.5 or below, you need to follow another step, which is written in http://pacific.mpi-cbg.de/wiki/index.php/MacOSX_tips#Running_Fiji_on_Java_1.5_.2832-bit.29

** maybe you could bring your own image data and ask instructors to demonstrate segmentation or registering the image using FIJI.

Elisabeth Hillier (DB Secretary ex 8165)
Kota Miura (ex 8404)
Francesca Peri (ex 8414)