Work Packages

The Swedish National Microscopy Infrastructure operational level relies on four main Work Packages described below. They gather trans-node and external experts in the corresponding domains. Their aims are to solve eventual barriers in sharing methods and techniques, to organize training, transfer and communication for user access to innovative technologies and methods and to define new emerging technological and methodological developments.

  • WP1 – Administrative and Quality Management
  • WP2 – Technology and Method Development
  • WP3 – Bioimage Informatics - Image Processing and Analysis
  • WP4 – Training, Dissemination and Outreach

WP1 – Administrative and Quality Management

Coordinator: Hjalmar Brismar

WP1 administers the NMI budget; Coordinates the user web-portal, user management and all incoming user project proposals for evaluation; Reporting; Quality management for user access e.g. online tools for user feedback and measuring user satisfaction.

WP2 – Technology and Method Development

Coordinators: Linda Sandblad & Richard Lundmark

This WP has a central role in collaboration across all NMI nodes to develop workflows that support emerging user needs. The infrastructure user groups (and researchers) play a key role in identification and application of new instruments and methods. NMI work in close contact with academic research groups and microscopy companies to influence the technology development. Through factory visits, project manager meetings and demonstrations we have the opportunity to use new development directly on current research project. NMI functions as beta-sites for new instruments, to forward user needs to industry and in the long term offer more user-friendly imaging solutions.

WP3 – Bioimage Informatics - Image Processing and Analysis

Coordinator: Carolina Wählby

Bioimage Informatics address questions related to the processing and analysis of image data. New approaches to extract quantitative information from image data are needed; quantitative evaluation increases the scientific value of all types of microscopy-based experiments. Several lines of research and development can be delineated: processing, analysis and visualization solutions for large-scale multimodal experiments; quantification and modeling of dynamic processes; learning-based approaches for noise reduction; intelligent image data archival and retrieval; high performance computing infrastructures dedicated to massive computational demands. NMI competence and collaboration with SciLifeLab data office and SNIC makes access to the large computing clusters easy for microscopy users through direct integration of facility servers to the national clusters. These questions are independent of image modality, and relevant across all modules.

WP4 – Training, Dissemination and Outreach

Coordinator: Julia Fernandez-Rodriguez

The NMI is deeply involved in training activities. These activities are first dedicated to both beginners and experienced users. However, the NMI strategy is also to develop vocational training to platform engineers and education for future platform staff, based on the concept that to “train the trainers”, is mandatory. Each NMI node already performs a lot of onsite training sessions (see core facilities websites). NMI aims to reinforce and support those already existing actions at the national level. More importantly, the NMI role is also to strengthen and disseminate the high quality national training activities in order to match up with an international visibility.

NMI training activities should focus on face-to-face courses aiming at infrastructure users in the currently offered technologies at an advanced level.

The training strategy is divided into three pillars:

  1. a User training programme incorporated in the NMI open access procedure, consisting of courses and “hands-on” training upon user access at the Node,
  2. a general training in imaging technologies as part of the continuous professional development (e.g. regular courses on specific imaging modalities, PhD student courses, summer schools etc.), and
  3. training of the imaging facilities’  staff.