Software

Numerous software packages and tools have been developed in the context of different projects of the Kohlbacher Lab.

OpenMS

OpenMS is an open-source software for mass spectrometry analysis.
Project Website: https://www.openms.de
Repository: https://github.com/OpenMS/OpenMS

Fred2

Fred2 is a python-based framework for computational immunomics.
Project Website: https://fred-2.github.io
Repository: https://github.com/FRED-2/Fred2

Claudio

CLAUDIO is a tool for structural analysis, mapping, validation, visualization, and modeling of protein cross-links on protein and protein-protein interaction.
Repository: https://github.com/KohlbacherLab/CLAUDIO

DNPM:DIP

The Data Integration Platform (DIP) for the German Network of Personalized Medicine (DNPM).
Project Website: https://docs.dnpm-dip.net/\ Repository: https://github.com/dnpm-dip

FLAME

FLAME (Federated Learning and Analyses in Medicine) is the open-source core of the PrivateAIM initiative, enabling secure, decentralized data analysis across institutions without sharing patient data.
Code: https://github.com/PrivateAim
Documentation: https://docs.privateaim.net/

XLEC

XLEC is an integrative approach combining cross-linking data and evolutionary couplings for large-scale prediction and modeling of protein-protein interactions. Repository: https://github.com/KohlbacherLab/XLEC