Portrait of Lukas Hübner Lukas Hübner

M.Sc. Lukas Hübner

Research Interest: Scalable Evolutionary Bioinformatics

  

  • Compute-efficient algorithms in population genetics
  • Fault-Tolerance in HPC-algorithms
  • Computational reproducibility
  • Distributed-memory development (MPI)
  • Applications of the above to evolutionary bioinformatics

Software

  • KaMPIng (Karlsruhe MPI Next Generation): (Near) zero-overhead modern C++ abstraction over the Message Passing Interface
  • gfkit (Genealogical Forest Kit): Compute-efficient statistics in population genetics
  • ReStore An in-memory REplicated STORagE for rapid recovery of data in fault-tolerant HPC-algorithms
  • Fault-Tolerant RAxML-NG (FT-RAxML-NG) Fault-tolerant version of the popular RAxML-NG phylogenetic inference tool
  • Coraxlib (COre RAXml LIBrary) encapsulates common routines used by likelihood-based phylogenetic software

Publications


Technical Reports
Title Author(s) Source Date

Benoit Morel, Pierre Barbera, Lucas Czech, Ben Bettisworth, Lukas Hübner, Sarah Lutteropp, Dora Serdari, Evangelia-Georgia Kostaki, Ioannis Mamais, Alexey M. Kozlov, Pavlos Pavlidis, Dimitrios Paraskevis, Alexandros Stamatakis

bioRxiv

August 2020

Demian Hespe, Lukas Hübner, Charel Mercatoris, and Peter Sanders

arXiv

November 2024

Demian Hespe, Lukas Hübner, Florian Kurpicz, Peter Sanders, Matthias Schimek, Daniel Seemaier, Christoph Stelz, Tim Niklas Uhl

arXiv

April 2024

Ivo Baar, Lukas Hübner, Peter Oettig, Adrian Zapletal, Sebastian Schlag, Alexandros Stamatakis, Benoit Morel

bioRxiv

March 2019

Julia Haag, Lukas Hübner, Alexey M. Kozlov, Alexandros Stamatakis

bioRxiv

July 2022

Lukas Hübner, Alexandros Stamatakis

bioRxiv

27th of Mai 2024

Lukas Hübner, Alexey M. Kozlov, Demian Hespe, Peter Sanders, Alexandros Stamatakis

bioRxiv

January 2021

Lukas Hübner, Demian Hespe, Peter Sanders, Alexandros Stamatakis

arXiv

January 2023
Presentations
Title Conference Author(s) Speaker

High-Performance Computing

Lukas Hübner

Lukas Hübner

WABI 2024

Lukas Hübner & Alexandros Stamatakis

Lukas Hübner

Biodiversity Bioinformatics Workshop 2023

Lukas Hübner

Lukas Hübner

Fault-Tolerance at eXtreme Scale (FTXS) 2022

Lukas Hübner, Demian Hespe, Peter Sanders, Alexandros Stamatakis

Lukas Hübner

Teaching

Courses, Seminars, Practicals
Title Type Semester Location
Vorlesung (V) WS 24/25
Praxis der Softwareentwicklung (PSE) SS 2023
Praxis der Forschung WS 23/24 + SS 24
lecture WS 23/24

Building 50.34, Lecture Hall -101

lab course SS 21
lecture WS 21/22

Building 50.34, Lecture Hall -101

lecture WS 22/23

Building 50.34, Lecture Hall -101

Available Thesis
Titel Forschungsthema Typ
Fault-Tolerance, Map Reduce, HPC Masterarbeit
Malleability, HPC Masterarbeit
Supervised Theses
Title Subject Supervisor Student
Fault-Tolerance

Demian Hespe, Lukas Hübner, Peter Sanders

Guido Zeitzmann

Efficient Evolutionary Bioinformatics

Lukas Hübner, Alexandros Stamatakis

Dominik Siebelt

Efficient Evolutionary Bioinformatics

Lukas Hübner, Alexandros Stamatakis

Johannes Hengstler

Fault-Tolerance, Computational Reproducibility

Lukas Hübner, Alexandros Stamatakis, Peter Sanders

Christoph Stelz

Phylogenetic Inference, Efficient Evolutionary Bioinformatics

Lukas Hübner, Alexandros Stamatakis

Julia Haag

Fault-Tolerance

Demian Hespe, Lukas Hübner, Peter Sanders

Charel Mercatoris