I wanted to organise a workshop on image processing for PhDs in the medical domain. I usually use Software Carpentry lessons in my workshops, but there are no lessons on image processing. Before starting to re-invent the wheel, I thought I should ask the Software Carpentry community if anybody had given a workshop like that recently.
Hey guys, image processing lesson anyone?
I was hit by a wave of suggestions and existing materials — and although not everything fitted in the scope of my workshop, it sure made my life a lot easier! Here is a summary of some of the useful links which were shared.
List of resources
- Python tutorial focused on packaging, testing, and performance using very simple image analysis.
- Example worked through with a group, cone counting using scipy.
- Check out the scipy lecture notes (in the end this is mostly what I did).
- Two-day workshop on image processing with Python. This course teaches the basics of bio-image processing, segmentation and analysis in python.
- Image Processing I, basic techniques for image processing using scikit-image with Python
- Digital Imaging and Vision Applications in Science (DIVAS) Image Processing, using Python and OpenCV to do basic image processing — I really liked this lesson, because OpenCV is super powerful, but was a bit afraid it wouldn’t work in some people’s laptop.
- PSYCH 214, arrays as images, images as arrays.
- Playing with images & filters, use numpy and mahotas to manipulate images.
- Lots of materials at scikit-image, The numbered ones are the most complete/polished.
- Developing image processing lessons at Stanford, for graduate students in neuroscience.
In the end
In the end, I had all the material that I wanted for my workshop, which went quite well — with the usual issues one encounters in a workshop: too basic for some, a bit confusing for others. One day I will find the perfect balance.
Do you have any valuable resources to include in the list? Let me know in a comment below!
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