Image-Processing-In-Microscopy

Course material for "Image Processing in Microscopy" at the Friedrich Schiller University in Jena in the Winter term 2023/24

Organisation

See Moodle for more details about the course itself.

Course Registration

Officially, over Friedolin. Remember to register for the lecture, the exercises and then at some point for the exam.

Homework

Details

Q&A Seminars

Details

Code

To download the files, we recommend git:

git clone git@https://https://github.com/bionanoimaging/Image-Processing-In-Microscopy-2023-2024.git

Usually via a git pull you can update the code. If anything goes wrong which you can't fix, clone it again to a new folder.

Julia Installation

Download the recent version 1.9.3 on the Julia Website.

Editor

We recommend using Visual Studio Code, especially install the Julia and git plugin for VSCode.

Documentation

Also check out the documentation. It is the best resource for julia because many other pages are outdated.

Cheatsheet

There is a Cheatsheet available.

Activate Environment

Open the downloaded source folder with VSCode. We are going to use Pluto.jl for the notebooks. Open the Julia REPL: Try to type:

julia> using Pluto # type y to install Pluto
 │ Package Pluto not found, but a package named Pluto is available from a registry. 
 │ Install package?
 │   (@v1.9) pkg> add Pluto 
 └ (y/n/o) [y]: y


julia> Pluto.run()

Opening http://localhost:1234/?secret=tiTBsJKJ in your default browser... ~ have fun!

Press Ctrl+C in this terminal to stop Pluto

A browser should open from where you can try to open a notebook.