A practical course on segmentation and visualisation of 3D electron microscopy data using IMOD for Centre for Microscopy and Microanalysis (CMM, UQ) facility staff and users.
About
We are pleased to announce that the Centre for Microscopy and Microanalysis (CMM) will be holding a 3D image processing course on 20 September, 2021*. The course is designed to teach researchers the IMOD software package (developed by Mastronarde Group, University of Colorado, Boulder.)
This is a hands-on workshop that will be held face-to-face on campus. The short course will provide users with practical experience in modelling and analysing 3D image data using a graphical user interface to the IMOD package and will concentrate on sample data sets provided by CMM. Firstly, there will be a short introductory presentation, and this will be followed by guided step-by-step procedures. There will be time during and afterward to ask questions and practice working with the datasets.
*If this class is over-subscribed, we will offer a second session on 24 September, 2021. Please register for the 20 September session using the form and we will liaise with you directly for your preferred session.
Topics covered
Basic principles of 2D and 3D Image processing
Sub-volume extraction
Manual segmentation
Semi-automated segmentation
3D modeling and surface rendering
Participants will work through sample data (provided by CMM) in CVL@Wiener. If you want to discuss your problematic data, please mention all details in the registration form (you’ll be contacted after the workshop to investigate the image processing issues related to your data in detail.
Workshop prerequisites and restrictions
Class sizes will be restricted to six (6) to allow for maximum interaction and computing.
Please note: you must have a CVL@Wiener account in order to participate in this class.
If you do not have a CVL account or need refreshing, pre-workshop sessions will be offered on 17 September, 2021. The pre-workshop session will be face-to-face on campus, and separate registration is required.
For further information about the workshop, please contact:
Dr Kathryn Hall - kathryn.hall@uq.edu.au
Event details
Date
20 September 2021
Time
2:30 pm – 4:30 pm AEST (duration 2.0 hours)
Instructors
Dr Rubbiya Ali (The University of Queensland)
with Dr Kathryn Hall (National Imaging Facility) and Irek Porebski (The University of Queensland)
Location
on-campus
St Lucia, The University of Queensland
Host organisation
Australian Characterisation Commons at Scale (ACCS) Project