MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data. - Daniel H. Huson; Sina Beier; Isabell Flade; Anna Górska; Mohamed El-Hadidi; Suparna Mitra; Hans-Joachim Ruscheweyh; Rewati Tappu (PLoS Comput. Biol., 2016)

NGS-pipe: a flexible, easily extendable and highly configurable framework for NGS analysis. - Jochen Singer; Hans-Joachim Ruscheweyh; Ariane L. Hofmann; Thomas Thurnherr; Franziska Singer; Nora C. Toussaint; Charlotte K. Y. Ng; Salvatore Piscuoglio; Christian Beisel; Gerhard Christofori; Reinhard Dummer; Michael N. Hall; et al. (Bioinform., 2018)

Bioinformatics for precision oncology. - Jochen Singer; Anja Irmisch; Hans-Joachim Ruscheweyh; Franziska Singer; Nora C. Toussaint; Mitchell P. Levesque; Daniel J. Stekhoven; Niko Beerenwinkel (Briefings Bioinform., 2019)

mTAGs: taxonomic profiling using degenerate consensus reference sequences of ribosomal RNA genes. - Guillem Salazar; Hans-Joachim Ruscheweyh; Falk Hildebrand; Silvia G. Acinas; Shinichi Sunagawa (Bioinform., 2021)

Dataset to: Environmental controls of dark CO2 fixation in wetland microbiota. - Luise Grüterich; Jason Nicholas Woodhouse; Peter Mueller; Amos Tiemann; Hans-Joachim Ruscheweyh; Shinichi Sunagawa; Hans-Peter Grossart; Wolfgang R. Streit (UHH-FDR, 2023)

Dataset to: Environmental controls of dark CO2 fixation in wetland microbiota. - Luise Grüterich; Jason Nicholas Woodhouse; Peter Mueller; Amos Tiemann; Hans-Joachim Ruscheweyh; Shinichi Sunagawa; Hans-Peter Grossart; Wolfgang R. Streit (UHH-FDR, 2023)

Dataset to: Environmental controls of dark CO2 fixation in wetland microbiomes. - Luise Grüterich; Jason Nicholas Woodhouse; Peter Mueller; Amos Tiemann; Hans-Joachim Ruscheweyh; Shinichi Sunagawa; Hans-Peter Grossart; Wolfgang R. Streit (UHH-FDR, 2023)

mBARq: a versatile and user-friendly framework for the analysis of DNA barcodes from transposon insertion libraries, knockout mutants, and isogenic strain populations. - Anna Sintsova; Hans-Joachim Ruscheweyh; Christopher M. Field; Lilith Feer; Bidong D. Nguyen; Benjamin Daniel; Wolf-Dietrich Hardt; Julia A. Vorholt; Shinichi Sunagawa (Bioinform., 2024)