Basics in Image Analysis using Python

31 Mar 2025, 12:00 → 2 Apr 2025, 17:00 Europe/Berlin

Großer Seminarraum 01. OG (European Neuroscience Institute Göttingen)

Antonio Politi (MPI-NAT)

In this course you will learn essential concepts in image analysis and how to apply those using the python programming language (packages skimage, napari). You need only very basics knowlegde in python. The concepts we cover during this course are essential if you want to use deep learning tools for image analysis.

Map of the location is in the link material. Please make dure to read the prerequisites before the course.  

The registration closes on Wednesday 26.03.2025.

There are 25 seats, and 5 seats for a waiting list. This is meant if all seats for your institution are already taken.

Entrance.png

Map to ENI

Prerequisites

Training Resources

Monday 31 March

13:00 → 15:00 Bioimage inspection: Basic image data and visualization

Bioimage inspection modules

13:00 Module 1 and 2

Digital image basics
Data types

13:45 Module 3

Lookup tables

14:30 Module 4

Spatial image calibration

15:00 → 15:30 Coffee break

15:30 → 17:00 Bioimage inspection: Multi dimensional images

Bioimage inspection modules

15:30 Module 5

Multichannel images

16:15 Module 6

Volume slicing

Tuesday 1 April

12:30 → 14:30 Bioimage analysis: Segmentation and thresholding

Bioimage analysis modules

12:30 Module 1 and 2

Segmentation
Thresholding

13:15 Module 3

Automated thresholding

14:00 Module 4

Connected component labeling

14:30 → 15:00 Coffee break

15:00 → 16:30 Bioimage analysis: Shape and intensity measurements

Bioimage analysis modules

15:00 Module 5 and 6

Object shape measurements
workflow nuclei segmentation 2D

15:45 Module 7

Object intensity measurements

Wednesday 2 April

13:00 → 15:00 Bioimage analysis: Filtering

Bioimage analysis modules

15:00 → 15:30 Coffee break

15:30 → 17:00 Bioimage analysis: Background subtraction

Bioimage analysis modules