Software Developer, R / Python / Galaxy job with MASARYK UNIVERSITY


Department: RECETOXFaculty of Sciences
Deadline: February 28, 2022
Start date: after agreement
Type of employment: full time | part time
Working area: SI / IT: Development of applications and systems

Bursar of the Faculty of Sciences of Masaryk University announces an open competition for the Software Developer (R / Python / Galaxy)

Workplace: RECETOX, Faculty of Science, Masaryk University, Czech Republic
Business hours: full time, 40 hours per week / part time, 20 hours per week
Expected start date: as soon as possible, or negotiable regarding immigration deadlines for non-EU applicants
Number of open positions: 2
Registration deadline: February 28, 2022, or until the position is filled

RECETOX focuses on interdisciplinary research and education in the field of environment and health, studying toxic compounds and their behavior, transport and bioaccumulation to assess environmental effects, assess exposure and risks to human health and develop technologies and biotechnologies to break them down.

job description

We are looking for a motivated SW Developer with solid technological background for the development of Mass Spectrometry data processing pipelines, tools and workflows. The overall goal is to develop a suite of tools within the Galaxy framework to process mass spectrometry data for the identification and quantification of small molecules (p. EIRENE for more details).

We focus on sustainable, long-term and open developments and rely on professional software development standards to achieve reproducible results. Within our international and multidisciplinary team in the Processing and analysis of spectrometric data Research Infrastructure (RI), you will implement robust and well tested software (mainly R & Python) and contribute to open source projects with respective methodologies (pull request, code reviews, etc.).

The position offers flexibility of time, a high level of interdisciplinarity in the fields of applied informatics, bioinformatics and analytical chemistry with vast potential for the development of your expertise. As an RI member, the position offers a unique opportunity for long-term academic engagement and potential for international collaboration with other European RIs.

Responsibilities may include

  • Development of scientific computer applications, modification and extensions of third-party applications, mainly for mass spectrometry
    • Writing of software and project documentation
    • Implementation of automatic tests
    • Packaging the software in reusable components
  • Continuous communication with scientists and users to understand the problem to be solved
  • Specifications of informal algorithms, mathematical formulas, technical requirements
  • Engagement in open source projects with external partners
  • Creation of presentations for internal and external use (for example, workshops, conferences, …)

Skills and qualifications

We are waiting

  • Creativity, open-mindedness, continuous search for improvements, innovative thinking
  • Continuous self-training on the job
  • Significant commitment to collaborative software development tasks (code reviews, documentation writing, upstream contributions)

We require that

  • Knowledge of a master’s degree in computer science, electrical engineering or computational disciplines in natural sciences (bioinformatics, computational chemistry, etc.)
  • Some experience in collaborative software development
  • Willingness to gradually learn about the research area
  • Good English skills

Beneficial to have / know

  • Knowledge of additional programming languages ​​(Java, C ++, C #, Julia)
  • Experience with the following frameworks / technologies: Workflow Engines (eg Galaxy), Containers (eg Docker), Git, SSH, Package Managers (eg Conda)
  • Experience in processing mass spectrometry data or other knowledge of the field
  • Experience working as a software engineer (or comparable) in industry

We offer

  • Dynamic work environment and access to state-of-the-art infrastructure
  • The dynamic group surrounded by an international team of experts
  • Participation in national and international projects
  • Social advantages: 6 weeks of vacation per year, health insurance, retirement insurance contribution, meal vouchers, language courses at reduced prices, etc.
  • Support in your move – more information here
  • Brno offers a high quality of life; it is a university town with a lot of cultures and very family-friendly
  • We offer you a first appointment of one year with the possibility of extension on mutual satisfaction.

Application process

Applicants must provide the following information in English

  • CV (recommended European standard)
  • Cover letter

The deadline for submitting applications is February 28, 2022. Applications will be reviewed continuously as they are received and until the position is filled. Shortlisted candidates who meet the requirements will be invited for personal or team interviews.

The request must be submitted online via an electronic application (Please use the link in the e-Application section below). After successfully submitting your application, you will receive an automatic confirmation email from

Contact: [email protected], Barbora Chlubná.

We are I await your news!

Selection process

Applications received will be carefully considered in accordance with the principles of the EU Charter and Code for Researchers. Selection criteria: (i) meet the qualification requirements described above, (ii) provide all required documents. The Faculty Recruitment Policy (OTM-R) can be viewed here.

The Faculty of Science of Masaryk University is an equal opportunity employer. We support diversity and are committed to creating an inclusive environment for all employees.

More about

Masaryk University is the second largest university in the Czech Republic with nine faculties, over 5,000 staff and over 30,000 students. As a comprehensive research-intensive university with a strong international reputation, our mission is to pursue superior research and education.

Faculty of Sciences UM, a proud holder of the Research HR Excellence Award by the European Commission, is a research-oriented faculty, offering a university education (bachelor’s, master’s and doctoral programs) closely linked to both primary and applied research and secondary education of the following sciences: mathematics, physics, chemistry, biology, and earth sciences. We are the most productive scientific unit at Masaryk University, generating around 40% of UM’s research results.

Brno, the capital of the South Moravian region, located approximately halfway between Prague and Vienna, it is the second largest university city in the Czech Republic and a modern metropolis with a long history and culture. Recognizing the important role of the university in making Brno one of the most innovative cities in the EEC region, it continuously supports, together with the South Moravian region, the local scientific, start-up and high-tech communities .

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