Image Analysis for Biologists
DBI-Infrastructure IACF is offering 8 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.
The 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 student will learn basic Macro programming and how to automate analysis of many images.
The course will consist of a course preparation day (Friday June 26th - introduction to image formation, basics on Fiji and preparation of own projects) followed by 5 days of teaching (29th of June to 3rd of July). The course program includes work on own project sessions with advice, supervision and support from the teachers (at least 3 at all times).
You can read more about the course and the take a look at the course description in the PhD school course catalogue.
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:
All participants are expected to bring their own laptop, which should meet the following requirements:
A minimum of 2 GB main RAM
A graphic board compatible with Fiji 3D viewer*
At least 10 GB available on the system partition
The ability to connect to internet through WIFI
A USB 2 or USB 3 port.
* To test if your graphic board is compatible with Fiji 3D viewer: call File > Open samples > Fly brain and Plugins > 3D viewer. Use the default settings of the 3D viewer and press "OK". You should see the 3D rendering of the image stack and also be able to interact with the volume with the mouse.
Students will have to pick a paper related to their research and evaluate the methods section related to an image analysis problem.
Catering: Coffee breaks & lunch will be catered for all days.
Registration Fees and Deadlines: The course is free of charge for PhD students at Danish universities (except Copenhagen Business School), and for PhD Students from NorDoc member faculties, via the University of Copenhagen Graduate School.
For all others (postdocs, staff scientists, PIs, facility staff), the course fee is 2400 kr when you register via the IACF.
Register before 23 May 2026
Register before 13 June 2026
Location
Panum Building
3B Blegdamsvej
University of Copenhagen (North Campus)
About the Organisers
Core Facility for Integrated Biology
CFIB is a microscopy core facility that offers open access to a broad range of Light and Electron microscopy technologies across scales. CFIB 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.
The facility actively promotes open science and the most efficient data sharing with the scientific community according to the FAIR principles. We are collaborating with the Danish e-Infrastructure Collaboration (DeiC), the Network of European BioImage Analysts (NEUBIAS) and Euro-BioImaging, and we are engaged in multiple training and dissemination activities.