Mini Course: Visualizing Tomography Data

Mini Course: Visualizing Tomography Data will unleash the power of 3D on a 2D screen!

There are many instruments in OIST that produce tomography or microtomography data, especially in Biology. There are also many software solutions to create and manipulate 3D objects from that tomography data. Amira is one of them, but in this Skill Pill, we chose to explore the open-source way by introducing three free software that work complementarily:

  • Drishti: a scientific 3D visualization software
  • ITK-SNAP: a software application used to segment structures in 3D medical images
  • ParaView: a data analysis, visualization and rendering application

Come join us and learn how to make the best out of your data, without spending a yen.

Target audience

This course is suitable for anyone.


The teachers will be Adam Khalife (intern) and Ales Bucek (postdoc).


The program is as follows (subject to small changes):

Date Topic
Tuesday, February 6, 10AM to 12PM Drishti
Thursday, February 8, 10AM to 12PM ITK-SNAP
Tuesday, February 13, 10AM to 12PM ParaView

All sessions will be hands-on. These software are usually meant to run on relatively powerful machines, but for the sake of teaching, we will make sure to use data sets and resolutions that modest laptops can handle.

You can download the slides used for this course here.

More information

  • Location: C700, Lab 3.
  • What to bring: a mouse with 3 buttons and a laptop with DrishtiITK-SNAP and ParaView installed. Make sure to install those well in advance so we can jump straight into the juicy stuff. Contact us if you have any issues installing the softwares.
  • Drinks: There will be free coffee and tea, bring your cup!

If you are interested in the course but cannot participate to this particular event, let us know and we will contact you for any later occurrence of the course.

Thank you very much for your interest.

How long have you used some before? Which ones? What do you use them for?
Why are you interested in this Skill Pill? Is there a particular thing you would like to learn?