Bioimage Analyst and Python programmer at Danish BioImaging…

Updated: 3 months ago
Deadline: 28 Nov 2022

The Danish BioImaging Infrastructure (DBI-INFRA) is a multi-sited national research infrastructure that includes ten bioimaging facilities giving open access to a broad portfolio of technologies; from clinical to single molecule imaging. The DBI-INFRA is the Danish node for the ERIC Euro-BioImaging. Funded by the Ministry for Higher Education and Research, DBI-INFRA will implement and develop new open access bioimaging technologies to support life scientists across Denmark and Europe.

The DBI-INFRA Image Analysis Core Facility is hiring a team of two to implement open access Image analysis services to be accessible from any of the DBI-INFRA bioimaging facilities. We are looking for a highly motivated and independent BioImage Analyst to be hired at the Facilty of Health and Medical Sciences and for a highly motivated and independent Python programmer to be hired at Department of Computer Sciences. Both candidates will work as a team at the University of CopenhagenThe successful candidates will join the team with effect from February 1st 2023 or as soon as possible thereafter. Please state clearly in your cover letter for which of the positions you are applying or whether you would like to be consider a candidate for both of them.

DBI-INFRA is looking for candidates with strong problem-solving mindset, and drive to learn and collaborate in multidisciplinary environments. The main workplace will be the newly created Image Analysis Core Facility (IACF) at the DBI-INFRA Hub in the Faculty of Health Sciences (Copenhagen University). This unique national core facility will gather a team of experts dedicated to service in bioimage analysis. The team will work supporting Life Science research groups and bioimaging facilities, analyzing a broad range of scientific datasets by leveraging the local computing infrastructure, creating new image analysis workflows and computing solutions by teaming up with computer scientists at DIKU and DTU, and promoting collaboration and FAIR share of image datasets within the Danish Bioimaging community.

Position as DBI-INFRA Bioimage Analyst - We are looking for a bioimage analyst, ideally with some experience in image analysis service provision and education of life scientists to join the new DBI-INFRA Image Analysis Core Facility.

Required skills:

  • Experience with a broad range of BioImage analysis tools (ImageJ, CellProfiler, QuPath…)
  • Programing experience to script common computational libraries
  • Proven support to Life Scientists, ideally within an interdisciplinary environment such as a bioimaging core facility
  • Good organizational and communication skills

Will be considered an advantage:

  • Knowledge in image or signal processing theory
  • Background in biology or bioinformatics
  • Experience in Python programming
  • Teaching experience

Primary activities:

  • Customizing software scripts and image analysis workflows
  • Organizing user training, workshops, and training schools
  • Making bioimage analysis workflows readily available to Life Scientists
  • Staying up to date and contributing to relevant bioimage analysis communities.

Postion as DBI-INFRA Python programmer - We are looking for a programmer, ideally with some experience in developing user-friendly computational applications and interest in bioimage analysis to join the new DBI-INFRA Image Analysis Core Facility.

Required skills:

  • Advanced programming experience in Python
  • Knowledge of basic image processing and experience with common image processing and data science libraries (scikit-image, Pytorch, Dask …)
  • Strong problem-solving mindset and ability to collaborate in interdisciplinary environments
  • Good organizational and communication skills

Will be considered an advantage:

  • Experience in working in high performance computing (HPC) environments
  • Experience in developing graphical user interfaces
  • Experience in bioimage analysis
  • Participation to open-source projects and interdisciplinary environments

Primary activities:

  • Making bioimage analysis workflows readily available to Life Scientists
  • Developing an integrated remote computing platform for bioimage analysis
  • Organizing user training, workshops, and training schools
  • Lifting proof-of-concept research code to production ready quality analysis workflows
  • Staying up to date and contributing to the bioimage analysis community

Since these two positions are part of a join call, the hiring committee for the two positions will be the same, and the selection process done in parallel and considering the compatibility of the two candidates as a complementary team. To facilitate this process, please state clearly which position you apply for, or whether you apply to both positions in case you consider your profile partially matches both.

Both positions are full time and for 4 years with a plan for sustainable prolongation. The successful candidates will be key players for the implementation of a world-wide unique national Image analysis Core Facility and will offered:

  • A job with great independence and variety in the tasks
  • A development-oriented and good social environment
  • A committed team of interdisciplinary colleagues who place a high value on professional collaboration, and who have an unpretentious, open, and respectful tone
  • Good professional and personal development opportunities such as courses and education
  • An equal opportunity environment committed to diversity and inclusion in the workplace
  • The world’s best quality of life (lonelyplanet.com)

Terms of employment

Employment will be in accordance with the provisions of the collective agreement between the Danish Ministry of Taxation and AC (the Danish Confederation of Professional Associations). The employmnet is as Special Consultant (specialkonsulent) with the possibility to negotiate a salary supplement based on prior experiences and qualifications. The employer will pay an additional 17.1 % to your pension fund.

Or

Employment will be in accordance to current collective agreement between the Ministry of Finance and Prosa with the possibility to negotiate a salary supplement based on prior experiences and qualifications.

Questions

For further information regarding the position, please contact Head of the DBI-INFRAIACF Sebastien Tosi sebastien.tosi@sund.ku.dk  or QIM/DIKU Professor Jon Sporring sporring@di.ku.dk .

Application

Your application should in English and include:

  • Letter of application addressing the requirements and stating clearly which position(s) you apply for (max. one page).
  • Curriculum Vitae
  • A certified/signed copy of certificate(s) of education

Please submit your application by clicking on “Apply Now” below. Only online applications will be accepted.

Application deadline: 28 November 2022, 23.59 CET

We reserve the right not to consider material received after the deadline, and not to consider applications that do not live up to the abovementioned requirements.

Interviews are expected to be held one week after deadline.

The University of Copenhagen wish to reflect the diversity of society and encourage all qualified candidates to apply regardless of personal background.


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