Scientific Programmer in Computational Biomedicine
University of Amsterdam Informatics Institute

Scientific Programmer Computational Biomedicine

Publication date 1 November 2019

Closing date 31 December 2019

Level of education Master's degree

Hours 38 hours per week

Salary indication €2,835 to €4,274 gross per month

Vacancy number 19-737


We seek a highly qualified scientific programmer for advanced applications in relation to Computational Biomedicine, executing on high-end massively parallel computing systems.

What are you going to do?

The main focus will be on the development and maintenance of our software portfolio (for an example see our open-source cellular flow modelling toolkit Hemocell and to contribute to workflows in relation to in-silico stroke trials (see INSIST). You will work, together with PhD students and Postdocs, on new, specialized applications of our software, as well as on improving the performance of our software. These applications are often embedded in large international projects in cooperation with external partners in e.g. Sheffield, London, or Geneva. You will support our scientific team to realize efficient HPC simulation solutions with these codes.

This position can give grounds to fast professional development in parallel numerical techniques, simulation methods, and application of state-of-the-art computational solutions for large-scale systems, and High Performance Computing on Europe’s largest supercomputers.

What do we require?

The candidates should have at least a Master’s degree in Computational Science or a related field, with experience in High Performance Computing. The candidate should be first and foremost an excellent programmer, fluent in C++ and Python, with experience in complex software engineering projects, including collaborative software development. Since most work revolves around numerical modelling, knowledge and general interest of solving scientific problems with numerical techniques is important. Furthermore, most work is done in collaboration with others, therefore the will and the capability to communicate with scientists from different disciplines (for instance biomedicine, physics, computer science) is necessary.

The following is considered an advantage for this position:

  • experience with scientific codes, including open-source ones such as: Palabos, HemeLB, Espresso, LAMMPS;
  • knowledge of HPC job scheduling systems (e.g. slurm, PBS);
  • knowledge of any of the following programming languages: Fortran, C#, Java, julia;
  • knowledge of the lattice Boltzmann method;
  • knowledge of workflow systems, e.g. Taverna;
  • familiarity with container technologies (e.g. Docker, Singularity);
  • motivation to read, process, and understand scientific papers (maybe even author a few).

Our offer

A temporary contract for 38 hours per week for a period of three years in the rank of ‘ICT developer’.

The salary, depending on qualifications and relevant experience before the beginning of the employment contract, will be €2,835 to € 3,895 (scale 9) to €2,709 to €4,274 (scale 10) gross per month, based on fulltime (38 hours a week), exclusive 8 % holiday allowance and 8.3 % end-of-year bonus. A favorable tax agreement, the ‘30% ruling’, may apply to non-Dutch applicants. Please note that for this position you have to be permitted to work in the Netherlands. The Collective Labour Agreement of Dutch Universities is applicable.

Some further things we offer:

  • very friendly, interactive and international working environment;
  • new building located near the city center (20 minutes by bicycle) of one of Europe’s most beautiful and lively cities;
  • access to high-end computing facilities (e.g. cluster with 4,000+ cores).

English is the working language within the Informatics Institute. Moreover, since Amsterdam is a very international city where almost everybody speaks and understands English, candidates need not be afraid of the language barrier.

Are you curious about our extensive package of secondary employment benefits? Then find out more about working at the Faculty of Science.


Do you have questions about this vacancy? Or do you want to know more about our organisation? Please contact:

  • Prof. Alfons Hoekstra
    T: +31 (0)20 525 7543 

About the Faculty of Science

The Faculty of Science has a student body of around 6,500, as well as 1,600 members of staff working in education, research or support services. Researchers and students at the Faculty of Science are fascinated by every aspect of how the world works, be it elementary particles, the birth of the universe or the functioning of the brain.

The mission of the Informatics Institute is to perform curiosity-driven and use-inspired fundamental research in Computer Science. The main research themes are Artificial Intelligence, Computational Science and Systems and Network Engineering. Our research involves complex information systems at large, with a focus on collaborative, data driven, computational and intelligent systems, all with a strong interactive component.

The Computational Science Lab of the Informatics Institute aims to make dynamic complex systems tractable via computational science. We study a broad range of dynamics systems in fields ranging from biomedicine to urban, or socioeconomic systems. We also develop theory of dynamic complex systems based on concepts of information processing.

Job application

The UvA is an equal-opportunity employer. We prioritise diversity and are committed to creating an inclusive environment for everyone. We value a spirit of enquiry and perseverance, provide the space to keep asking questions, and promote a culture of curiosity and creativity.

The Informatics Institute strives for a better gender balance in its staff. We therefore strongly encourage women to apply for this position.

Do you recognize yourself in the job profile? Then we look forward to receiving your CV and cover letter by 31 december 2019. You may apply online by using the link below.

Applications should include:

  • a curriculum vitae (including an url allowing download of pdf of MSc thesis - if relevant);
  • a letter of motivation (at most 1 page) explaining why you are interested in this position;
  • a list of all university courses taken, including a transcript of grades;
  • the name and contact details (including email address) of two referees who can provide details about your profile (one of whom should be the main supervisor of your Master thesis).


If you apply for this position please say you saw it on Bioloxy


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