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Image data science with Python and Napari
Course preparation
Day 1: Introduction to Python and Bio-image Analysis
Introduction to the course
Interactive pixel classification and object segmentation in Napari
Interactive object classification in Napari
The Napari Assistant
Generating Jupyter Notebooks from the Napari Assistant
Introduction to Python
Python code in Jupyter notebooks
Pitfalls when working with Jupyter notebooks
Basic types in python
Lists and tuples
Indexing and Slicing
Images in python
Cropping images
Masking numpy arrays
Dictionaries
Conditions
Loops
Functions
Day 2: Image Filtering, Segmentation and Feature Extraction
Introduction to Bioimage analysis
File Paths
Image file formats
Simple Folder Structures
Advanced Folder Structures
Image filtering
Segmentation
Day 3: Napari Plugins: Developers Showcase
napari-zelda
napari-superres
Repository
Open issue
Index
