This Open Textbook by Dr Peter Bankhead of The University of Edinburgh Centre for Genomic & Experimental Medicine published on GitHub, provides an introduction to bioimage analysis, including practical exercises and Jupyter Book content.

 

Book Description by Pete Bankhead

This book tries explain the main ideas of image analysis in a practical and engaging way.

It’s written primarily for busy biologists who need to analyze images as part of their work – but I hope others might find it useful as well.

The core content is based on my earlier handbook Analyzing fluorescence microscopy images with ImageJ (PDF, GitBook). This has been extensively revised, generalized and expanded; the new title reflects the fact that it’s no longer entirely focussed on fluorescence images, nor on ImageJ – although both still play a big role.

The biggest change is that it now exists as an open Jupyter Book. This makes the whole thing more maintainable for me, and interactive for anyone who reads it.

It’s a work in progress, and probably always will be, but I hope you find it useful.

Click here to go to the Open Textbook: Introduction to Bioimage Analysis