Programme
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25 August – 30 August 2019
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Past
1st Day
09:30 – 10:00
Welcome & introduction of the Course
Roberto
Bruzzone, Musa Mhlanga, George Tsao
10:00 – 12:30
Students’ self-introduction
12:30 – 13:30
Lunch
13:30 – 15:00
Lecture 1: Introduction to deep learning
15:00 – 17:00
Tutorial
Microscope Operation Training & Hands-on Practice
17:00 – 18:00
Introduction of Fiji
18:30 – 20:30
Welcome reception
2nd Day
09:00 – 10:30
Lecture 2: Deep Learning in Systems Biology: High Content Screening
10:30 – 11:00
Break
11:00 – 12:30
Lecture 3: Content-Aware Image Restoration for Light and Electron Microscopy Facilitates Quantitative Data Analysis
12:30 – 13:30
Lunch
13:30 – 18:00
Practical session
Acquiring image data and training set data on microscopes from provided samples
CARE
- Denoising, Isotropic; NoiseToVoid
3rd Day
09:00 – 10:30
Lecture 4: Towards a mechanistic understanding of cellular processes by cryo-EM
10:30 – 11:00
Break
11:00 – 12:30
Lecture 5: A new force awakens: comparative approach to tissue morphogenesis in insects
12:30 – 13:30
Lunch
13:30 – 18:00
Practical session
Processing of the data acquired the previous day on provided virtual Paperspace computers in the cloud
CARE
- Denoising, Isotropic; NoiseToVoid
4th Day
09:00 – 10:30
Lecture 6: Multi-scale analysis of cell and tissue organization
10:30 – 11:00
Break
11:00 – 12:30
Lecture 7: Image restoration and segmentation with machine learning
12:30 – 13:30
Lunch
13:30 – 18:00
Practical session
Second round of microscopy and processing to demonstrate CARE and NoiseToVoid
Practical
session on StarDist
18:30 – 19:00
Lecture 8: DataViz with 3DScript in Fiji
5th Day
09:00 – 10:30
Lecture 9: Deep learning for massive imaging in microscopy and pathology, deep learning for the masses
10:30 – 11:00
Break
11:00 – 12:30
Lecture 10: Open source analytics for super-resolution microscopy
12:30 – 13:30
Lunch
13:30 – 18:00
Practical session
SRRF, SQUIRREL/UNICORN and ANA-PALM
6th Day
09:00 – 10:30
Data analysis
10:30 – 11:00
Break
11:00 – 12:30
Data analysis
12:30 – 13:30
Lunch
13:30 – 18:30
Presentation of the results of the practical workshops and general discussion
18:30 – 20:30
Celebration Dinner
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