BioImage Informatics

The BioImage Informatics Unit provides the support and training you need to perform state-of-the-art analyses on your image data. Our experts can help you deploy computational methods using computer vision, machine learning, and bioinformatics to analyze your images. Whether you are looking for training on how to use existing software solutions or help developing a custom workflow, we can help you get your analysis running.

Contact us in person, join a Call4Help, or write us an email. We usually respond fast and are always open to new ideas. You can visit us at one of our two locations: at the SciLifeLab Solna campus, or at the Centre for Image Analysis in Uppsala.

mailto:biif@scilifelab.se(opens in a new tab)

SERVICES

• Advice on best-practice and guidance on overall experimental design (staining, sample preparation, and image acquisition) for research involving microscopy imaging and quantitative data analysis.
• Guidance on image analysis assay development, including image processing algorithm development and software engineering to address challenging project goals.
• Advice on best-practice and guidance on high throughput/large-scale image processing using computing clusters, including data transfer and storage during the activity of the project.
• Guidance on large-scale data analysis and visualization.

Here is a collection of ongoing and completed projects supported by the BioImage Informatics Unit.

We regularly send out a newsletter informing about upcoming events, workshops, seminar etc. – drop us an e-mail to be included or read our newsletter online.

COURSES AND WORKSHOPS

Part of our research support is provided in the form of courses, workshops and invited talks at courses related to digital image processing and analysis in life science.

Upcoming Courses and Seminars where we are involved:

• Advanced Methods in Bioimage Analysis, EMBL Heidelberg (remote); June 26 – July 2, 2021

NEUBIAS ACADEMY WEBINARS

We are involved in the organization of NEUBIAS Academy, please find a number of tutorials on image analysis tools here:  http://neubiasacademy.org.

Youtube Videos:
Events are recorded and made available online on the NEUBIAS Youtube channel.
ImageJ/Fiji Macro Scripting link

NEWSLETTER

In our newsletter we inform about upcoming courses on bioimage analysis, services of BIIF, and other useful information about bioimage analysis. Just drop us an e-mail if you want to be added to our mailing list. You can also read the newsletter online.

CALL4HELP

You can always contact us via biif@scilifelab.se for support on image analysis. Additionally, we offer Call4Help sessions. Here we team up with Sylvie LeGuyader, LCI, Karolinska Institutet and Rafael Camacho, CCI, University of Gothenborg. During the Call4Help session you will have access to expert advice covering all aspects of your image analysis research – from the acquisition of digital images to the finished analysis.

The ideal time to join a Call4Help session is after you have performed some initial pilot experiments but before you have started collecting large amounts of data in earnest.

You can find the details here.