Algorithmic Bioinformatics

Projects

de.NBI - CIBI

Knut Reinert

Progress in medicine and life sciences becomes more and more dependent on complex workflows for data analysis. The immensely increasing amount of data that scientists are faced with demands a continuous improvement in these workflows as well as efficient algorithms and tools. CIBI maintains the bioinformatic resources SeqAn and OpenMS and the workflow engine KNIME, supporting their users and software developers in the fields of proteomics, metabolomics, and High-Througput sequencing. CIBI ...

Ess-B.A.R.

Prof. Knut Reinert

Im Verbundprojekt Ess-B.A.R. werden konkrete Lösungsansätze erarbeitet, die zu einer Verbesserung des Schutzes der Gesellschaft bei außergewöhnlichen biologischen Gefahrenlagen beitragen. Dies geschieht im Rahmen eines anwendungsorientierten Forschungsvorhabens in interdisziplinärer Zusammenarbeit eines wissenschaftlichen Konsortiums, das Lebensmittelmikrobiologie, Diagnostik, Epidemiologie und Informationstechnologien verbindet. Der Beitrag unseres Teilvorhabens ist es, auf Grundlage der ...

SeqAn IPCC

Prof. Knut Reinert

The analysis of sequencing data is demanding because of the enormous data volume and the need for fast turnaround time, accuracy, reproducibility, and data security. This requires a large variety of expertise: Algorithm design, strong implementation skills for analyzing big data on standard hardware and accelerators, statistical knowledge, and specific domain knowledge for each medical problem. Hence, the development of tools is often fragmented, mainly driven by academic groups and SMEs with ...

OpenMS

Knut Reinert

      OpenMS - A C++ library for MS based Proteomics analysis The OpenMS library is intended to provide a flexible framework for the differential analysis of HPLC/MS data. OpenMS offers algorithms for peak picking, protein ID, labeled and label-free quantitation. OpenMS has been and is being used in several BMBF and EU projects.   OpenMS - An open-source framework for mass spectrometry OpenMS is an open-source software C++ library for LC/MS data management and analyses. It offers an ...

SeqAn

Knut Reinert

    A C++ library for biological sequence analysis SeqAn is an open source C++ library of efficient algorithms and data structures for the analysis of sequences with the focus on biological data. Our library applies a unique generic design that guarantees high performance, generality, extensibility, and integration with other libraries. SeqAn is easy to use and simplifies the development of new software tools with a minimal loss of performance.   The software library is intended to allow ...