OMERO Hands-On Workshop - July 31 – August 1, 2023
Note –
Time change!
Workshop will start at 9:30 am
Workshop Faculty
Jean-Marie Burel – University of Dundee, Scotland
Petr Walczysko – University of Dundee, Scotland
Workshop Location:
McGill University, Stewart Biology Building, North Wing, 2nd floor, room N2/2
You may enter the 2nd floor through central courtyard via Penfield. N2/2 will be on your right. If you enter the doors across from McIntyre, take the stairs or elevator to the 2nd floor, and N2/2 will be on your left.
N2/2
Workshop Program by day
Monday, July 31, 2023
9:30 - 10:00 am – Registration and Welcome
10:00 - 10:30 am – Overview: Research data management and metadata - Judith Lacoste
10:30 – 10:50 am – Coffee Break
10:50 am - 12:50 pm – Introduction to OMERO
- Jean-Marie Burel and Petr Walczysko
12:50 - 1:40 pm – Lunch (Bellini Atrium)
1:40 - 3:40 pm – How to make figures with
OMERO figure - Jean-Marie Burel and Petr Walczysko
-
Efficiently making publication figures from images stored in OMERO
-
Using the OMERO metadata to efficiently label the figure panels
-
Adding ROIs from OMERO to the figure panels
-
Saving and exporting figures
-
Sharing figures with others
3:40 - 4:00 pm – Coffee Break
4:00 - 5:30 pm – Interacting with image data using OMERO parade - Jean-Marie Burel and Petr Walczysko
-
Exploring how analytical results (e.g., segmentations, numerical result tables) are stored in OMERO
-
Using the analytical results to organize, filter and view the OMERO images
-
Plotting images according to the associated analytical results
5:30 - 6:30 pm
Wine and Cheese Reception
(Bellini Atrium)
Tuesday, August 1, 2023
9:00 -10:30 am – Interfacing Fiji/ImageJ Image Analysis - Jean-Marie Burel and Petr Walczysko
10:30 – 11:00 am – Coffee Break
11:00 - 11:15 am – Introduction to advanced research computing resources of the Digital Research Alliance of Canada - Judith Lacoste
11:15 am -12:00 pm – Python script and cloud-based image analyses in OMERO
- Jean-Marie Burel and Petr Walczysko
12:00 - 1:00 pm – Lunch (Bellini Atrium)
Workshop program ends
By invitation only:
1:00 - 5:00 pm – OMERO + BINA/CBI Project Teams
1:00 - 2:00 pm – Advanced applications in OMERO
2:00 - 3:00 pm – Strategies for image data import with automated sample preparation, experimental design and microscopy metadata annotation
3:00 - 3:30 pm – Coffee Break
3:30 - 4:00 pm – Strategies for making OMERO data public
4:00 - 4:30 pm – Strategies for working with patient data
4:30 - 5:00 pm – Strategies for developing Next-Generation metadata for NGFF
6:30 pm – Informal dinner
