Tobias Marschall

According to our database, Tobias Marschall authored at least 42 papers between 2006 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

Correction: Constructing founder sets under allelic and non-allelic homologous recombination.

Konstantinn Bonnet, Tobias Marschall, Daniel Doerr

Algorithms Mol. Biol., December, 2023

Constructing founder sets under allelic and non-allelic homologous recombination.

Konstantinn Bonnet, Tobias Marschall, Daniel Doerr

Algorithms Mol. Biol., December, 2023

2022

BubbleGun: enumerating bubbles and superbubbles in genome graphs.

Fawaz Dabbaghie, Jana Ebler, Tobias Marschall

Bioinform., 2022

2021

MBG: Minimizer-based sparse de Bruijn Graph construction.

Mikko Rautiainen, Tobias Marschall

Bioinform., 2021

ASHLEYS: automated quality control for single-cell Strand-seq data.

Christina Gros, Ashley D. Sanders, Jan O. Korbel, Tobias Marschall, Peter Ebert

Bioinform., 2021

2020

Chromatyping: Reconstructing Nucleosome Profiles from NOMe Sequencing Data.

Shounak Chakraborty, Stefan Canzar, Tobias Marschall, Marcel H. Schulz

J. Comput. Biol., 2020

2019

12 Grand Challenges in Single-Cell Data Science.

David Laehnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Niko Beerenwinkel, Kieran R. Campbell, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan-Otto Attolini, Samuel Aparicio, Jasmijn A. Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M. Keizer, Indu Khatri, Szymon M. Kielbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P. F. Lelieveldt, Ion I. Mandoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Lukasz Raczkowski, Marcel J. T. Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth

PeerJ Prepr., 2019

Bit-parallel sequence-to-graph alignment.

Mikko Rautiainen, Veli Mäkinen, Tobias Marschall

Bioinform., 2019

Fully-sensitive seed finding in sequence graphs using a hybrid index.

Ali Ghaffaari, Tobias Marschall

Bioinform., 2019

2018

Strand-seq enables reliable separation of long reads by chromosome via expectation maximization.

Maryam Ghareghani, David Porubsky, Ashley D. Sanders, Sascha Meiers, Evan E. Eichler, Jan O. Korbel, Tobias Marschall

Bioinform., 2018

A graph-based approach to diploid genome assembly.

Shilpa Garg, Mikko Rautiainen, Adam M. Novak, Erik Garrison, Richard Durbin, Tobias Marschall

Bioinform., 2018

2017

Genotyping inversions and tandem duplications.

Jana Ebler, Alexander Schönhuth, Tobias Marschall

Bioinform., 2017

A Guided Tour to Computational Haplotyping.

Gunnar W. Klau, Tobias Marschall

Proceedings of the Unveiling Dynamics and Complexity, 2017

2016

Eliminating Blind Spots in Genetic Variant Discovery.

Alexander Schönhuth, Tobias Marschall

ERCIM News, 2016

Representing Pattern Matching Algorithms by Polynomial-Size Automata.

Tobias Marschall, Noemi E. Passing

CoRR, 2016

PWHATSHAP: efficient haplotyping for future generation sequencing.

Andrea Bracciali, Marco Aldinucci, Murray Patterson, Tobias Marschall, Nadia Pisanti, Ivan Merelli, Massimo Torquati

BMC Bioinform., 2016

Detecting horizontal gene transfer by mapping sequencing reads across species boundaries.

Kathrin Trappe, Tobias Marschall, Bernhard Y. Renard

Bioinform., 2016

Read-based phasing of related individuals.

Shilpa Garg, Marcel Martin, Tobias Marschall

Bioinform., 2016

2015

Next generation cluster editing.

Thomas Bellitto, Tobias Marschall, Alexander Schönhuth, Gunnar W. Klau

PeerJ Prepr., 2015

WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads.

Murray Patterson, Tobias Marschall, Nadia Pisanti, Leo van Iersel, Leen Stougie, Gunnar W. Klau, Alexander Schönhuth

J. Comput. Biol., 2015

Genome sequence analysis with MonetDB - A case study on Ebola virus diversity.

Robin Cijvat, Stefan Manegold, Martin L. Kersten, Gunnar W. Klau, Alexander Schönhuth, Tobias Marschall, Ying Zhang

Datenbank-Spektrum, 2015

Repeat- and error-aware comparison of deletions.

Roland Wittler, Tobias Marschall, Alexander Schönhuth, Veli Mäkinen

Bioinform., 2015

2014

Viral Quasispecies Assembly via Maximal Clique Enumeration.

Armin Töpfer, Tobias Marschall, Rowena A. Bull, Fabio Luciani, Alexander Schönhuth, Niko Beerenwinkel

PLoS Comput. Biol., 2014

WhatsHap: Haplotype Assembly for Future-Generation Sequencing Reads.

Murray Patterson, Tobias Marschall, Nadia Pisanti, Leo van Iersel, Leen Stougie, Gunnar W. Klau, Alexander Schönhuth

Proceedings of the Research in Computational Molecular Biology, 2014

High-Performance Haplotype Assembly.

Marco Aldinucci, Andrea Bracciali, Tobias Marschall, Murray Patterson, Nadia Pisanti, Massimo Torquati

Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2014

2013

Mapping proteins in the presence of paralogs using units of coevolution.

Mohammed El-Kebir, Tobias Marschall, Inken Wohlers, Murray Patterson, Jaap Heringa, Alexander Schönhuth, Gunnar W. Klau

BMC Bioinform., 2013

Discovering motifs that induce sequencing errors.

Manuel Allhoff, Alexander Schönhuth, Marcel Martin, Ivan G. Costa, Sven Rahmann, Tobias Marschall

BMC Bioinform., 2013

MATE-CLEVER: Mendelian-inheritance-aware discovery and genotyping of midsize and long indels.

Tobias Marschall, Iman Hajirasouliha, Alexander Schönhuth

Bioinform., 2013

2012

Probabilistic Arithmetic Automata and Their Applications.

Tobias Marschall, Inke Herms, Hans-Michael Kaltenbach, Sven Rahmann

IEEE ACM Trans. Comput. Biol. Bioinform., 2012

CLEVER: clique-enumerating variant finder.

Tobias Marschall, Ivan G. Costa, Stefan Canzar, Markus Bauer, Gunnar W. Klau, Alexander Schliep, Alexander Schönhuth

Bioinform., 2012

Solving the Minimum String Cover Problem.

Stefan Canzar, Tobias Marschall, Sven Rahmann, Chris Schwiegelshohn

Proceedings of the 14th Meeting on Algorithm Engineering & Experiments, 2012

2011

Algorithms and statistical methods for exact motif discovery.

Tobias Marschall

PhD thesis, 2011

Construction of minimal deterministic finite automata from biological motifs.

Tobias Marschall

Theor. Comput. Sci., 2011

An Algorithm to Compute the Character Access Count Distribution for Pattern Matching Algorithms.

Tobias Marschall, Sven Rahmann

Algorithms, 2011

2010

Exact Analysis of Pattern Matching Algorithms with Probabilistic Arithmetic Automata

Tobias Marschall, Sven Rahmann

CoRR, 2010

Construction of minimal DFAs from biological motifs

Tobias Marschall

CoRR, 2010

Speeding Up Exact Motif Discovery by Bounding the Expected Clump Size.

Tobias Marschall, Sven Rahmann

Proceedings of the Algorithms in Bioinformatics, 10th International Workshop, 2010

Exact Analysis of Horspool's and Sunday's Pattern Matching Algorithms with Probabilistic Arithmetic Automata.

Tobias Marschall, Sven Rahmann

Proceedings of the Language and Automata Theory and Applications, 2010

2009

Efficient exact motif discovery.

Tobias Marschall, Sven Rahmann

Bioinform., 2009

Modeling evolutionary fitness for DNA motif discovery.

Sven Rahmann, Tobias Marschall, Frank Behler, Oliver Kramer

Proceedings of the Genetic and Evolutionary Computation Conference, 2009

2008

Probabilistic Arithmetic Automata and Their Application to Pattern Matching Statistics.

Tobias Marschall, Sven Rahmann

Proceedings of the Combinatorial Pattern Matching, 19th Annual Symposium, 2008

2006

Automatic Detection of Song Changes in Music Mixes Using Stochastic Models.

Thomas Plötz, Gernot A. Fink, Peter Husemann, Sven Kanies, Kai Lienemann, Tobias Marschall, Marcel Martin, Lars Schillingmann, Matthias Steinrücken, Henner Sudek

Proceedings of the 18th International Conference on Pattern Recognition (ICPR 2006), 2006