SIS develops and mantains a number of software for research data management and data analysis.


openBIS is a FAIR open platform for managing scientific information. Its purpose is to support research data workflows from bench to publication. As a combined data management platform, electronic laboratory notebook (ELN) and laboratory information management system (LIMS), openBIS facilitates reproducibility of scientific results by keeping track of all relevant information on procedures, original and derived research data, analysis methods and knowledge resources. openBIS is a complete data management solution for quantitative research labs.

Biomechanical Analyzer​

The Biomechanical Analyzer is a web-based analysis and visualisation tool to upload, process, store and analyze curves from an atomic force microscope developed for the Nash Group at the University of Basel and BSSE. Read more


The software application Mass Spec Software environment emzed was developed to facilitate development of individual analysis workflows for liquid chromatography-mass spectroscopy (LCMS) data.


beeWM is a workflow manager designed to interact with openBIS. It can handle different types of analysis workflows (e.g. genomics, image analysis). beeWM gathers data from openBIS, it sends it to a compute cluster where the analysis runs and then sends the results back to openBIS.


SIS YouScope is a microscopy measurement and acquisition automation software. Based on the initial version of YouScope, developed by Moritz Lang at D-BSSE, SIS Youscope offers stability, improved performance and usability in the creation of measurement workflows of any complexity. SIS YouScope is an open source project, built on top of Micromanager, and thus is compatible with a wide range of microscopy hardware and configurations.

MediaWiki plug-in for annotating parts of pages​

YATA (Yet Another Text Annotation) is a plug-in for MediaWiki developed for the Wagner group in D-GESS. A requirement was to be able to search on categories and display the context of the matches. Read more

Utility and Ecoval​

The R packages ecoval and utility are tools to assess natural morphology of surface waters, or of plants in rivers from EAWAG SIAM. EcoVal UI is a stand-alone installer and user-friendly graphical interface for these packages such that cantonal administration offices can easily interact with the R packages.​ Read more