This workshop covers the basics of image analysis using scikit-image (skimage), a popular image analysis toolkit written in Python. It is geared toward those with low-to-moderate programming experience, but beginners should be able to follow along with the provided tutorial code. This material will cover image file IO, basic processing such as rescaling and filtering, and basic image segmentation.
Lesson material source code is found in the lessons/ folder. You can access the rendered pages here: https://thejacksonlaboratory.github.io/Basic_skimageJAX/
Setup Instructions for the Workshop
Lesson 2: Filters and convolutions
Lesson 3: Morphology and Segmentation
scikit-image API reference: http://scikit-image.org/docs/stable/api/api.html
"Official" scikit-image tutorial: https://github.com/scikit-image/skimage-tutorials
scikit-image tutorial on YouTube: https://www.youtube.com/watch?v=pZATswy_IsQ