Free eBooks

• Transform to Open Science: NASA's book on how to do Open Science
• The Turing Way: Book on how to do Open Science created by the Turing Way Community
• Scientific Python Library Development Guide: Guide to proper Python packaging, testing, etc.

Video tutorials

• Transparent Research 101: Overview playlist on why and how to do open and reproducible research
• Jupyter notebook and python for scientists: Overview of the Jupyter/python environment
• Scipy conference: In between conference talks, there are tutorials on Jupyter and the main scientific libraries
• pyData conference: In between conference talks, there are tutorials on Jupyter and the main scientific libraries

Hands-on tutorials

• SimpleITK notebooks: Collection of all the SimpleITK functionalities: image I/O, filters, etc.
• SPIE 2019 workshop: Tutorial on how to use SimpleITK
• OpenMR Benelux 2020: Basic Python and one medical image analysis example
• Imperial College: Notebooks for an academic course

Examples of notebooks in medical image analysis

• ORMIR community notebooks: Notebooks created by our community!
• JCMSK notebooks: Our notebooks on musculosketelal imaging-based research
• Nipype: Several notebook tutorials on how to use Nipype (neuroimaging)
• DLTK: Examples for a deep learning package

Examples of notebooks in other fields

• A gallery of interesting Jupyter Notebooks: Notebooks used in other disciplines and for various purposes

Cheat sheets

• Python: example1, example2, example3
• NumPy (linear algebra): example1, example2
• Matplotlib (visualization): example1
• Pandas (tabular data analysis): example1, exemple2