Speakers
Description
It is recommended to take a Python-Basics Course before. For example from the first week of this Summer Academy.
In this course we will introduce image processing with Python, Jupyter lab and Napari. Students will learn how to process images interactively in Napari and afterwards how to replicate the same results in Jupyter notebooks. Additionally, the students will get an idea how to export tables of measurements and plot results in Jupyter notebooks. The notebooks can then be conserved and allow reproducible image data science mid-/long-term. We will use Python libraries such as numpy, scipy, scikit-image, pandas and matplotlib. Furthermore, GPU-accelerated image processing using pyclesperanto for processing 3D data will be introduced as well.
Attendees who attend the course should go through the installation instructions provided on this website:
https://www.napari-hub.org/plugins/devbio-napari#installation
In case of issues with the installation, attendees can reach out any time – before the course - by opening a thread on https://image.sc and tagging @haesleinhuepf . Or consider joining the session at 9:30 to solve installation issues.
This course is an excelent follow up to the lecture series Imaging - from Organisms to Molecules runing this summer term. Participants of the lecture will be given preference in participation.
→ Register here ←
| Target audience | Researcher from Biology, Chemistry, Physics, Engineering, Computer Science, Mathematics with an affinity to Imaging |
|---|---|
| Learning target | how to process images interactively in Napari, how to replicate the same results in Jupyter notebooks, how to export tables of measurements and plot results in Jupyter notebooks. GPU-accelerated image processing using pyclesperanto for processing 3D data will be introduced as well |
| Previous experience | Phython basics. |
| Maximum number of participants | unlimited |
