Tobias Marschall

50 papers A 2B 4C 5Journal 35Unranked 3
YearRankTypeTitle / Venue / Authors
2025 C conf
DiVerG: Scalable Distance Index for Validation of Paired-End Alignments in Sequence Graphs.
WABI
Ali Ghaffaari, Alexander Schönhuth, Tobias Marschall
2024 J jnl
Panacus: fast and exact pangenome growth and core size estimation.
Bioinform.
Luca Parmigiani, Erik Garrison, Jens Stoye, Tobias Marschall, Daniel Doerr
2023 J jnl
Constructing founder sets under allelic and non-allelic homologous recombination.
Algorithms Mol. Biol.
Konstantinn Bonnet, Tobias Marschall, Daniel Doerr
2023 J jnl
Correction: Constructing founder sets under allelic and non-allelic homologous recombination.
Algorithms Mol. Biol.
Konstantinn Bonnet, Tobias Marschall, Daniel Doerr
2022 J jnl
BubbleGun: enumerating bubbles and superbubbles in genome graphs.
Bioinform.
Fawaz Dabbaghie, Jana Ebler, Tobias Marschall
2022 C conf
Constructing Founder Sets Under Allelic and Non-Allelic Homologous Recombination.
WABI
Konstantinn Bonnet, Tobias Marschall, Daniel Doerr
2021 J jnl
ASHLEYS: automated quality control for single-cell Strand-seq data.
Bioinform.
Christina Gros, Ashley D. Sanders, Jan O. Korbel, Tobias Marschall, Peter Ebert
2021 J jnl
MBG: Minimizer-based sparse de Bruijn Graph construction.
Bioinform.
Mikko Rautiainen, Tobias Marschall
2020 J jnl
Chromatyping: Reconstructing Nucleosome Profiles from NOMe Sequencing Data.
J. Comput. Biol.
Shounak Chakraborty, Stefan Canzar, Tobias Marschall, Marcel H. Schulz
2019 J jnl
12 Grand Challenges in Single-Cell Data Science.
PeerJ Prepr.
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
2019 J jnl
Bit-parallel sequence-to-graph alignment.
Bioinform.
Mikko Rautiainen, Veli Mäkinen, Tobias Marschall
2019 J jnl
Fully-sensitive seed finding in sequence graphs using a hybrid index.
Bioinform.
Ali Ghaffaari, Tobias Marschall
2018 J jnl
A graph-based approach to diploid genome assembly.
Bioinform.
Shilpa Garg, Mikko Rautiainen, Adam M. Novak, Erik Garrison, Richard Durbin, Tobias Marschall
2018 B conf
Chromatyping: Reconstructing Nucleosome Profiles from NOMe Sequencing Data.
RECOMB
Shounak Chakraborty, Stefan Canzar, Tobias Marschall, Marcel H. Schulz
2018 J jnl
Strand-seq enables reliable separation of long reads by chromosome via expectation maximization.
Bioinform.
Maryam Ghareghani, David Porubsky, Ashley D. Sanders, Sascha Meiers, Evan E. Eichler, Jan O. Korbel, Tobias Marschall
2017 C conf
A Guided Tour to Computational Haplotyping.
CiE
Gunnar W. Klau, Tobias Marschall
2017 J jnl
Genotyping inversions and tandem duplications.
Bioinform.
Jana Ebler, Alexander Schönhuth, Tobias Marschall
2016 J jnl
Detecting horizontal gene transfer by mapping sequencing reads across species boundaries.
Bioinform.
Kathrin Trappe, Tobias Marschall, Bernhard Y. Renard
2016 J jnl
Eliminating Blind Spots in Genetic Variant Discovery.
ERCIM News
Alexander Schönhuth, Tobias Marschall
2016 J jnl
PWHATSHAP: efficient haplotyping for future generation sequencing.
BMC Bioinform.
Andrea Bracciali, Marco Aldinucci, Murray Patterson, Tobias Marschall, Nadia Pisanti, Ivan Merelli, Massimo Torquati
2016 J jnl
Read-based phasing of related individuals.
Bioinform.
Shilpa Garg, Marcel Martin, Tobias Marschall
2016 J jnl
Representing Pattern Matching Algorithms by Polynomial-Size Automata.
CoRR
Tobias Marschall, Noemi E. Passing
2015 J jnl
Genome sequence analysis with MonetDB - A case study on Ebola virus diversity.
Datenbank-Spektrum
Robin Cijvat, Stefan Manegold, Martin L. Kersten, Gunnar W. Klau, Alexander Schönhuth, Tobias Marschall, Ying Zhang
2015 — conf
Genome sequence analysis with monetdb: a case study on ebola virus diversity.
BTW Workshops
Robin Cijvat, Stefan Manegold, Martin L. Kersten, Gunnar W. Klau, Alexander Schönhuth, Tobias Marschall, Ying Zhang
2015 J jnl
Next generation cluster editing.
PeerJ Prepr.
Thomas Bellitto, Tobias Marschall, Alexander Schönhuth, Gunnar W. Klau
2015 J jnl
Repeat- and error-aware comparison of deletions.
Bioinform.
Roland Wittler, Tobias Marschall, Alexander Schönhuth, Veli Mäkinen
2015 J jnl
WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads.
J. Comput. Biol.
Murray Patterson, Tobias Marschall, Nadia Pisanti, Leo van Iersel, Leen Stougie, Gunnar W. Klau, Alexander Schönhuth
2014 — conf
High-Performance Haplotype Assembly.
CIBB
Marco Aldinucci, Andrea Bracciali, Tobias Marschall, Murray Patterson, Nadia Pisanti, Massimo Torquati
2014 B conf
Viral Quasispecies Assembly via Maximal Clique Enumeration.
RECOMB
Armin Töpfer, Tobias Marschall, Rowena A. Bull, Fabio Luciani, Alexander Schönhuth, Niko Beerenwinkel
2014 J jnl
Viral Quasispecies Assembly via Maximal Clique Enumeration.
PLoS Comput. Biol.
Armin Töpfer, Tobias Marschall, Rowena A. Bull, Fabio Luciani, Alexander Schönhuth, Niko Beerenwinkel
2014 B conf
WhatsHap: Haplotype Assembly for Future-Generation Sequencing Reads.
RECOMB
Murray Patterson, Tobias Marschall, Nadia Pisanti, Leo van Iersel, Leen Stougie, Gunnar W. Klau, Alexander Schönhuth
2013 J jnl
Discovering motifs that induce sequencing errors.
BMC Bioinform.
Manuel Allhoff, Alexander Schönhuth, Marcel Martin, Ivan G. Costa, Sven Rahmann, Tobias Marschall
2013 J jnl
MATE-CLEVER: Mendelian-inheritance-aware discovery and genotyping of midsize and long indels.
Bioinform.
Tobias Marschall, Iman Hajirasouliha, Alexander Schönhuth
2013 J jnl
Mapping proteins in the presence of paralogs using units of coevolution.
BMC Bioinform.
Mohammed El-Kebir, Tobias Marschall, Inken Wohlers, Murray Patterson, Jaap Heringa, Alexander Schönhuth, Gunnar W. Klau
2013 J jnl
Next Generation Cluster Editing.
CoRR
Thomas Bellitto, Tobias Marschall, Alexander Schönhuth, Gunnar W. Klau
2012 J jnl
CLEVER: clique-enumerating variant finder.
Bioinform.
Tobias Marschall, Ivan G. Costa, Stefan Canzar, Markus Bauer, Gunnar W. Klau, Alexander Schliep, Alexander Schönhuth
2012 J jnl
Probabilistic Arithmetic Automata and Their Applications.
IEEE ACM Trans. Comput. Biol. Bioinform.
Tobias Marschall, Inke Herms, Hans-Michael Kaltenbach, Sven Rahmann
2012 A conf
Solving the Minimum String Cover Problem.
ALENEX
Stefan Canzar, Tobias Marschall, Sven Rahmann, Chris Schwiegelshohn
2011 — —
Algorithms and statistical methods for exact motif discovery.
Tobias Marschall
2011 J jnl
An Algorithm to Compute the Character Access Count Distribution for Pattern Matching Algorithms.
Algorithms
Tobias Marschall, Sven Rahmann
2011 J jnl
Construction of minimal deterministic finite automata from biological motifs.
Theor. Comput. Sci.
Tobias Marschall
2010 J jnl
Construction of minimal DFAs from biological motifs
CoRR
Tobias Marschall
2010 C conf
Exact Analysis of Horspool's and Sunday's Pattern Matching Algorithms with Probabilistic Arithmetic Automata.
LATA
Tobias Marschall, Sven Rahmann
2010 J jnl
Exact Analysis of Pattern Matching Algorithms with Probabilistic Arithmetic Automata
CoRR
Tobias Marschall, Sven Rahmann
2010 J jnl
Probabilistic Arithmetic Automata and their Applications
CoRR
Tobias Marschall, Inke Herms, Hans-Michael Kaltenbach, Sven Rahmann
2010 C conf
Speeding Up Exact Motif Discovery by Bounding the Expected Clump Size.
WABI
Tobias Marschall, Sven Rahmann
2009 J jnl
Efficient exact motif discovery.
Bioinform.
Tobias Marschall, Sven Rahmann
2009 A conf
Modeling evolutionary fitness for DNA motif discovery.
GECCO
Sven Rahmann, Tobias Marschall, Frank Behler, Oliver Kramer
2008 B conf
Probabilistic Arithmetic Automata and Their Application to Pattern Matching Statistics.
CPM
Tobias Marschall, Sven Rahmann
2006 — conf
Automatic Detection of Song Changes in Music Mixes Using Stochastic Models.
ICPR (3)
Thomas Plötz, Gernot A. Fink, Peter Husemann, Sven Kanies, Kai Lienemann, Tobias Marschall, Marcel Martin, Lars Schillingmann, Matthias Steinrücken, Henner Sudek