MissForest - non-parametric missing value imputation for mixed-type data. - Daniel J. Stekhoven; Peter Bühlmann (Bioinform., 2012)

Causal stability ranking. - Daniel J. Stekhoven; Izabel Moraes; Gardar Sveinbjörnsson; Lars Hennig; Marloes H. Maathuis; Peter Bühlmann (Bioinform., 2012)

Pattern alternating maximization algorithm for missing data in high-dimensional problems. - Nicolas Städler; Daniel J. Stekhoven; Peter Bühlmann (J. Mach. Learn. Res., 2014)

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)

SwissMTB: establishing comprehensive molecular cancer diagnostics in Swiss clinics. - Franziska Singer; Anja Irmisch; Nora C. Toussaint; Linda Grob; Jochen Singer; Thomas Thurnherr; Niko Beerenwinkel; Mitchell P. Levesque; Reinhard Dummer; Luca Quagliata; Sacha I. Rothschild; Andreas Wicki; et al. (BMC Medical Informatics Decis. Mak., 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)

Text-Mining Services of the Swiss Variant Interpretation Platform for Oncology. - Déborah Caucheteur; Julien Gobeill; Anaïs Mottaz; Emilie Pasche; Pierre-André Michel; Luc Mottin; Daniel J. Stekhoven; Valérie Barbié; Patrick Ruch (MIE, 2020)

scAmpi - A versatile pipeline for single-cell RNA-seq analysis from basics to clinics. - Anne Bertolini; Michael Prummer; Mustafa Anil Tuncel; Ulrike Menzel; María Lourdes Rosano-González; Jack Kuipers; Daniel J. Stekhoven; Tumor Profiler Consortium; Niko Beerenwinkel; Franziska Singer (PLoS Comput. Biol., 2022)

gExcite: a start-to-end framework for single-cell gene expression, hashing, and antibody analysis. - Linda Grob; Anne Bertolini; Matteo Carrara; Ulrike Lischetti; Aizhan Tastanova; Christian Beisel; Mitchell P. Levesque; Daniel J. Stekhoven; Franziska Singer (Bioinform., 2023)