Image Analysis for Biologists
DBI-Infrastructure IACF is offering 10 seats at the week-long CFIM PhD Course — Image Analysis for Biologists for external participants. You will be taking the course alongside PhD students at the University of Copenhagen, and will be expected to participate in the homework and projects assigned.
In this course, we will initially use Fiji to illustrate fundamental image analysis concepts, then expand to introduce other software packages such as QuPath and Napari. Students will learn what a digital image is, how and when to perform basic image processing tasks and how to combine such tasks to perform advanced image processing and segmentation, automated pixel classification and 2D and 3D measurements. Furthermore, the students will learn basic Macro programming and how to automate analysis of many images.
Scope: The workshop is directed to life scientists with relevant image analysis needs and bioimaging facility staff planning to support their users in image analysis.
Requirements: Participants are expected to bring a laptop, further instructions will be sent before the workshop. No prior programming knowledge required!
Catering: Coffee breaks & lunch will be catered for all days.
Registration Fee: 2000 DKK
Registration Deadline: 13th of June 2025
Programme
Download program booklet as pdf file. (subject to minor changes)
Location
Panum Building
Room 13.2.51 (20th June)
Room 21.2.22a (23rd - 27th June)
3B Blegdamsvej
University of Copenhagen (North Campus)
About the Organisers
Core Facility for Integrated Microscopy
CFIM is a microscopy core facility that offers open access to a broad range of Light and Electron microscopy technologies across scales. CFIM offers also open access Image analysis services to efficiently correlate multimodal data and efficiently extract information from the increasingly complex and big image-based data sets.
DBI Infra IACF
The Danish Bioimaging Infrastructure (DBI-Infra) Image Analysis Core Facility (IACF) provides open services in image analysis to life scientists and medical researchers. We offer both in-person and remote support, helping you to visualize, analyze, and extract quantitative information out of your bioimaging datasets from anywhere.
Our team of experts is here to discuss your image analysis needs, guide and train you in the most suitable software solutions, or develop a complete image analysis workflow tailored to your scientific project. We leverage an extensive hardware and software infrastructure designed for remote image analysis, including a pool of latest-generation workstations, innovative High Performance Computing and data exchange services, and a broad range of bioimage analysis software tools.
Sébastien Tosi (Pompeu Fabra University)
Sébastien Tosi (Biophysics in Cell Biology Group, Pompeu Fabra University) previously headed Danish Bioimaging Infrastructure image analysis core facility (DBI-INFRA IACF) and worked at the IRB Barcelona Advanced Microscopy Core Facility (ADMCF). He collaborates with life scientists to help them optimize their imaging experiments for quantitative analysis and tailor image analysis software tools to extract relevant information backing their research hypotheses. He published several open bioimage analysis source software tools and organized international courses on the topic, especially as a core member of NEUBIAS (the Network of European BioImage Analysts).