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ORCIDPeter F. Stadler
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- affiliation: University of Leipzig, Department of Computer Science
- affiliation: University of Vienna, Institute for Theoretical Chemistry
- affiliation: Max Planck Institute for Biophysical Chemistry
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2020 – today
- 2023
[j233]Hua-Ting Yao, Ronny Lorenz, Ivo L. Hofacker
, Peter F. Stadler:
Mono-valent salt corrections for RNA secondary structures in the ViennaRNA package. Algorithms Mol. Biol. 18(1): 8 (2023)- [j232]David Schaller, Tom Hartmann, Manuel Lafond, Peter F. Stadler, Nicolas Wieseke, Marc Hellmuth:
Relative timing information and orthology in evolutionary scenarios. Algorithms Mol. Biol. 18(1): 16 (2023) - [j231]Lisa Fiedler, Matthias Bernt, Martin Middendorf, Peter F. Stadler:
Detecting gene breakpoints in noisy genome sequences using position-annotated colored de-Bruijn graphs. BMC Bioinform. 24(1): 235 (2023) - [j230]Carsten R. Seemann, Vincent Moulton, Peter F. Stadler, Marc Hellmuth:
Planar median graphs and cubesquare-graphs. Discret. Appl. Math. 331: 38-58 (2023) - [j229]Annachiara Korchmaros, David Schaller, Marc Hellmuth, Peter F. Stadler:
Quasi-best match graphs. Discret. Appl. Math. 331: 104-125 (2023) - [j228]Marc Hellmuth, Katharina T. Huber, Vincent Moulton, Guillaume E. Scholz, Peter F. Stadler:
Injective Split Systems. Graphs Comb. 39(4): 65 (2023) - [j227]Maria Waldl, Thomas Spicher, Ronny Lorenz, Irene K. Beckmann, Ivo L. Hofacker, Sarah von Löhneysen, Peter F. Stadler:
Local RNA folding revisited. J. Bioinform. Comput. Biol. 21(4): 2350016:1-2350016:19 (2023) - [j226]David Schaller, Marc Hellmuth, Peter F. Stadler:
Orientation of Fitch Graphs and Reconciliation-Free Inference of Horizontal Gene Transfer in Gene Trees. SIAM J. Discret. Math. 37(3): 2172-2207 (2023) - [j225]David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler:
Best Match Graphs With Binary Trees. IEEE ACM Trans. Comput. Biol. Bioinform. 20(3): 1679-1690 (2023) - [j224]Marc Hellmuth, David Schaller, Peter F. Stadler:
Clustering systems of phylogenetic networks. Theory Biosci. 142(4): 301-358 (2023) - [c69]Sarah von Löhneysen, Thomas Spicher, Yuliia Varenyk, Hua-Ting Yao, Ronny Lorenz, Ivo L. Hofacker, Peter F. Stadler:
Phylogenetic Information as Soft Constraints in RNA Secondary Structure Prediction. ISBRA 2023: 267-279 - [c68]Jakob L. Andersen, Sissel Banke, Rolf Fagerberg, Christoph Flamm, Daniel Merkle, Peter F. Stadler:
On the Realisability of Chemical Pathways. ISBRA 2023: 409-419 - [c67]Karl Käther, Steffen Lemke, Peter F. Stadler:
Annotation-Free Identification of Potential Synteny Anchors. IWBBIO (1) 2023: 217-230 - [i59]Konstantin Klemm, Anita Mehta, Peter F. Stadler:
Optimisation via encodings: a renormalisation group perspective. CoRR abs/2303.16258 (2023) - [i58]Marc Hellmuth, Peter F. Stadler:
The Theory of Gene Family Histories. CoRR abs/2304.11826 (2023) - [i57]Marc Hellmuth, Peter F. Stadler, Sandhya Thekkumpadan Puthiyaveedu:
Fitch Graph Completion. CoRR abs/2306.06878 (2023) - [i56]Angel Garcia-Chung, Marisol Bermúdez-Montaña, Peter F. Stadler, Jürgen Jost, Guillermo Restrepo:
Chemically inspired Erdős-Rényi oriented hypergraphs. CoRR abs/2309.06351 (2023) - [i55]Jakob L. Andersen, Sissel Banke, Rolf Fagerberg, Christoph Flamm, Daniel Merkle, Peter F. Stadler:
On the Realisability of Chemical Pathways. CoRR abs/2309.10629 (2023) - [i54]Ameera Vaheeda Shanavas, Manoj Changat, Marc Hellmuth, Peter F. Stadler:
Unique Least Common Ancestors and Clusters in Directed Acyclic Graphs. CoRR abs/2309.13634 (2023) - 2022
- [j223]Tom Hartmann, Max Bannach, Martin Middendorf, Peter F. Stadler, Nicolas Wieseke, Marc Hellmuth:
Complete edge-colored permutation graphs. Adv. Appl. Math. 139: 102377 (2022) - [j222]Anahy Santiago Arguello, Peter F. Stadler:
Whitney's connectivity inequalities for directed hypergraphs. Art Discret. Appl. Math. 5(1) (2022) - [j221]Dulce I. Valdivia, Maribel Hernández-Rosales, Manuela Geiß, Peter F. Stadler, Marc Hellmuth:
Hierarchical and modularly-minimal vertex colorings. Art Discret. Appl. Math. 6(2): 2 (2022) - [j220]Peter F. Stadler, Sebastian Will:
Bi-alignments with affine gaps costs. Algorithms Mol. Biol. 17(1): 10 (2022) - [j219]Robson Bonidia, Anderson P. Avila-Santos, Breno Lívio Silva de Almeida, Peter F. Stadler, Ulisses Nunes da Rocha, Danilo Sipoli Sanches, André C. P. L. F. de Carvalho:
BioAutoML: automated feature engineering and metalearning to predict noncoding RNAs in bacteria. Briefings Bioinform. 23(4) (2022) - [j218]Grover E. C. Guzman, Peter F. Stadler, André Fujita:
Efficient eigenvalue counts for tree-like networks. J. Complex Networks 10(5) (2022) - [j217]Carmen Bruckmann, Peter F. Stadler, Marc Hellmuth:
From modular decomposition trees to rooted median graphs. Discret. Appl. Math. 310: 1-9 (2022) - [j216]Marc Hellmuth, David Schaller, Peter F. Stadler:
Compatibility of partitions with trees, hierarchies, and split systems. Discret. Appl. Math. 314: 265-283 (2022) - [j215]Robson Parmezan Bonidia, Anderson P. Avila-Santos, Breno Lívio Silva de Almeida, Peter F. Stadler, Ulisses Nunes da Rocha, Danilo Sipoli Sanches, André C. P. L. F. de Carvalho:
Information Theory for Biological Sequence Classification: A Novel Feature Extraction Technique Based on Tsallis Entropy. Entropy 24(10): 1398 (2022) - [j214]Stefan Müller, Christoph Flamm, Peter F. Stadler:
What makes a reaction network "chemical"? J. Cheminformatics 14(1): 63 (2022) - [j213]Franziska Reinhardt, Peter F. Stadler:
ExceS-A: an exon-centric split aligner. J. Integr. Bioinform. 19(1) (2022) - [j212]Christoph Flamm, Marc Hellmuth, Daniel Merkle, Nikolai Nøjgaard, Peter F. Stadler:
Generic Context-Aware Group Contributions. IEEE ACM Trans. Comput. Biol. Bioinform. 19(1): 429-442 (2022) - [c66]Dustyn Eggers, Christian Höner zu Siederdissen, Peter F. Stadler:
Accuracy of RNA Structure Prediction Depends on the Pseudoknot Grammar. BSB 2022: 20-31 - [i53]Marc Hellmuth, David Schaller, Peter F. Stadler:
Clustering Systems of Phylogenetic Networks. CoRR abs/2204.13466 (2022) - [i52]David Schaller, Tom Hartmann, Manuel Lafond, Nicolas Wieseke, Marc Hellmuth, Peter F. Stadler:
Relative Timing Information and Orthology in Evolutionary Scenarios. CoRR abs/2212.02201 (2022) - 2021
- [j211]Wilmer Leal, Guillermo Restrepo, Peter F. Stadler, Jürgen Jost:
Forman-Ricci Curvature for hypergraphs. Adv. Complex Syst. 24(1): 2150003:1-2150003:24 (2021) - [j210]David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler:
Arc-Completion of 2-Colored Best Match Graphs to Binary-Explainable Best Match Graphs. Algorithms 14(4): 110 (2021) - [j209]Thomas Gatter, Sarah von Löhneysen, Jörg Fallmann, Polina Drozdova, Tom Hartmann, Peter F. Stadler:
LazyB: fast and cheap genome assembly. Algorithms Mol. Biol. 16(1): 8 (2021) - [j208]David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler:
Heuristic algorithms for best match graph editing. Algorithms Mol. Biol. 16(1): 19 (2021) - [j207]David Schaller, Marc Hellmuth, Peter F. Stadler:
A simpler linear-time algorithm for the common refinement of rooted phylogenetic trees on a common leaf set. Algorithms Mol. Biol. 16(1): 23 (2021) - [j206]Adam Nunn, Christian Otto, Peter F. Stadler, David Langenberger:
Comprehensive benchmarking of software for mapping whole genome bisulfite data: from read alignment to DNA methylation analysis. Briefings Bioinform. 22(5) (2021) - [j205]Adam Nunn, Christian Otto, Peter F. Stadler, David Langenberger:
Erratum to: Comprehensive benchmarking of software for mapping whole genome bisulfite data: from read alignment to DNA methylation analysis. Briefings Bioinform. 22(5) (2021) - [j204]Thomas Gatter, Peter F. Stadler:
Ryūtō: improved multi-sample transcript assembly for differential transcript expression analysis and more. Bioinform. 37(23): 4307-4313 (2021) - [j203]John Anders, Hannes Petruschke, Nico Jehmlich, Sven-Bastiaan Haange, Martin von Bergen, Peter F. Stadler:
A workflow to identify novel proteins based on the direct mapping of peptide-spectrum-matches to genomic locations. BMC Bioinform. 22(1): 277 (2021) - [j202]Halima Saker, Rainer Machné, Jörg Fallmann, Douglas B. Murray, Ahmad M. Shahin, Peter F. Stadler:
Weighted Consensus Segmentations. Comput. 9(2): 17 (2021) - [j201]Marc Hellmuth, Carsten R. Seemann, Peter F. Stadler:
Generalized Fitch Graphs III: Symmetrized Fitch maps and Sets of Symmetric Binary Relations that are explained by Unrooted Edge-labeled Trees. Discret. Math. Theor. Comput. Sci. 23(1) (2021) - [j200]David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler:
Least resolved trees for two-colored best match graphs. J. Graph Algorithms Appl. 25(1): 397-416 (2021) - [j199]Sarah J. Berkemer, Christian Höner zu Siederdissen, Peter F. Stadler:
Compositional Properties of Alignments. Math. Comput. Sci. 15(4): 609-630 (2021) - [j198]Jonas Coelho Kasmanas, Alexander Bartholomäus, Felipe Borim Corrêa, Tamara L. Tal, Nico Jehmlich, Gunda Herberth, Martin von Bergen, Peter F. Stadler, André Carlos Ponce de Leon Ferreira de Carvalho, Ulisses Nunes da Rocha:
HumanMetagenomeDB: a public repository of curated and standardized metadata for human metagenomes. Nucleic Acids Res. 49(Database-Issue): D743-D750 (2021) - [j197]Fabian Gärtner, Felix Kühnl, Carsten R. Seemann, Christian Höner zu Siederdissen, Peter F. Stadler:
Superbubbles as an empirical characteristic of directed networks. Netw. Sci. 9(1): 49-58 (2021) - [j196]Grover E. C. Guzman, Peter F. Stadler, André Fujita:
Efficient Laplacian spectral density computations for networks with arbitrary degree distributions. Netw. Sci. 9(3): 312-327 (2021) - [j195]David Schaller, Peter F. Stadler, Marc Hellmuth:
Complexity of modification problems for best match graphs. Theor. Comput. Sci. 865: 63-84 (2021) - [c65]David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler:
Best Match Graphs with Binary Trees. AlCoB 2021: 82-93 - [c64]Mirele C. S. F. Costa, João Victor de Araújo Oliveira, Waldeyr M. C. Silva, Rituparno Sen, Jörg Fallmann, Peter F. Stadler, Maria Emília M. T. Walter:
Machine Learning Studies of Non-coding RNAs based on Artificially Constructed Training Data. BIOINFORMATICS 2021: 176-183 - [c63]Manoj Changat, Ferdoos Hossein Nezhad, Peter F. Stadler:
Cut Vertex Transit Functions of Hypergraphs. CALDAM 2021: 222-233 - [c62]Marc Hellmuth, Mira Michel, Nikolai N. Nøjgaard, David Schaller, Peter F. Stadler:
Combining Orthology and Xenology Data in a Common Phylogenetic Tree. BSB 2021: 53-64 - [e4]Peter F. Stadler, Maria Emília M. T. Walter, Maribel Hernandez-Rosales, Marcelo M. Brigido:
Advances in Bioinformatics and Computational Biology - 14th Brazilian Symposium on Bioinformatics, BSB 2021, Virtual Event, November 22-26, 2021, Proceedings. Lecture Notes in Computer Science 13063, Springer 2021, ISBN 978-3-030-91813-2 [contents] - [i51]David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler:
Least resolved trees for two-colored best match graphs. CoRR abs/2101.07000 (2021) - [i50]David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler:
Arc-Completion of 2-Colored Best Match Graphs to Binary-Explainable Best Match Graphs. CoRR abs/2103.06665 (2021) - [i49]Carmen Bruckmann, Peter F. Stadler, Marc Hellmuth:
From Modular Decomposition Trees to Rooted Median Graphs. CoRR abs/2103.06683 (2021) - [i48]David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler:
Heuristic Algorithms for Best Match Graph Editing. CoRR abs/2103.07280 (2021) - [i47]Marc Hellmuth, David Schaller, Peter F. Stadler:
Compatibility of Partitions, Hierarchies, and Split Systems. CoRR abs/2104.14146 (2021) - [i46]David Schaller, Marc Hellmuth, Peter F. Stadler:
A Linear-Time Algorithm for the Common Refinement of Rooted Phylogenetic Trees on a Common Leaf Set. CoRR abs/2107.00072 (2021) - [i45]Marc Hellmuth, Mira Michel, Nikolai N. Nøjgaard, David Schaller, Peter F. Stadler:
Combining Orthology and Xenology Data in a Common Phylogenetic Tree. CoRR abs/2107.01893 (2021) - [i44]Jakob L. Andersen, Christoph Flamm, Daniel Merkle, Peter F. Stadler:
Defining Autocatalysis in Chemical Reaction Networks. CoRR abs/2107.03086 (2021) - [i43]Carsten R. Seemann, Vincent Moulton, Peter F. Stadler, Marc Hellmuth:
Planar Median Graphs and Cubesquare-Graphs. CoRR abs/2110.09346 (2021) - [i42]David Schaller, Marc Hellmuth, Peter F. Stadler:
Orientation of Fitch Graphs and Detection of Horizontal Gene Transfer in Gene Trees. CoRR abs/2112.00403 (2021) - [i41]David H. Wolpert, Michael H. Price, Stefani A. Crabtree, Timothy A. Kohler, Jürgen Jost, James Evans, Peter F. Stadler, Hajime Shimao, Manfred D. Laubichler:
The Past as a Stochastic Process. CoRR abs/2112.05876 (2021) - 2020
- [j194]Adrian Fritz, Marc Hellmuth, Peter F. Stadler, Nicolas Wieseke:
Cograph editing: Merging modules is equivalent to editing P_4s. Art Discret. Appl. Math. 3(2) (2020) - [j193]Manoj Changat, Prasanth G. Narasimha-Shenoi, Ferdoos Hossein Nezhad, Matjaz Kovse, Shilpa Mohandas, Abisha Ramachandran, Peter F. Stadler:
Transit sets of -point crossover operators. AKCE Int. J. Graphs Comb. 17(1): 519-533 (2020) - [j192]Peter F. Stadler, Manuela Geiß, David Schaller, Alitzel López, Marcos González Laffitte, Dulce I. Valdivia, Marc Hellmuth, Maribel Hernandez-Rosales:
From pairs of most similar sequences to phylogenetic best matches. Algorithms Mol. Biol. 15(1): 5 (2020) - [j191]Angel E. Rodriguez-Fernandez, Bernardo A. Gonzalez-Torres, Ricardo Menchaca-Mendez, Peter F. Stadler:
Clustering Improves the Goemans-Williamson Approximation for the Max-Cut Problem. Comput. 8(3): 75 (2020) - [j190]Marc Hellmuth, Carsten R. Seemann, Peter F. Stadler:
Generalized Fitch graphs II: Sets of binary relations that are explained by edge-labeled trees. Discret. Appl. Math. 283: 495-511 (2020) - [j189]Yangjing Long, Peter F. Stadler:
Exact-2-relation graphs. Discret. Appl. Math. 285: 212-226 (2020) - [j188]Gábor Balogh, Stephan H. Bernhart, Peter F. Stadler, Jana Schor:
A probabilistic version of Sankoff's maximum parsimony algorithm. J. Bioinform. Comput. Biol. 18(1): 2050004:1-2050004:19 (2020) - [j187]Felipe Borim Corrêa, João Pedro Saraiva, Peter F. Stadler, Ulisses Nunes da Rocha:
TerrestrialMetagenomeDB: a public repository of curated and standardized metadata for terrestrial metagenomes. Nucleic Acids Res. 48(Database-Issue): D626-D632 (2020) - [j186]Marc Hellmuth, Manuela Geiß, Peter F. Stadler:
Complexity of modification problems for reciprocal best match graphs. Theor. Comput. Sci. 809: 384-393 (2020) - [j185]Wim Hordijk, Stuart A. Kauffman, Peter F. Stadler:
Average Fitness Differences on NK Landscapes. Theory Biosci. 139(1): 1-7 (2020) - [j184]Rituparno Sen, Jörg Fallmann, Maria Emília M. T. Walter, Peter F. Stadler:
Are spliced ncRNA host genes distinct classes of lncRNAs? Theory Biosci. 139(4): 349-359 (2020) - [c61]Ronny Lorenz, Christoph Flamm, Ivo L. Hofacker, Peter F. Stadler:
Efficient Computation of Base-pairing Probabilities in Multi-strand RNA Folding. BIOINFORMATICS 2020: 23-31 - [c60]Ronny Lorenz, Christoph Flamm, Ivo L. Hofacker, Peter F. Stadler:
Efficient Algorithms for Co-folding of Multiple RNAs. BIOSTEC (Selected Papers) 2020: 193-214 - [c59]Thomas Gatter, Sarah von Löhneysen, Polina Drozdova, Tom Hartmann, Peter F. Stadler:
Economic Genome Assembly from Low Coverage Illumina and Nanopore Data. WABI 2020: 10:1-10:22 - [c58]Manuela M. do Almo, Isabel G. Sousa, Waldeyr Mendes Cordeiro da Silva, Thomas Gatter, Peter F. Stadler, Steve Hoffmann, Andrea Queiroz Maranhão, Marcelo M. Brigido:
Anti-CD3 Stimulated T Cell Transcriptome Reveals Novel ncRNAs and Correlates with a Suppressive Profile. BSB 2020: 180-191 - [c57]Waldeyr Mendes Cordeiro da Silva, Daniela P. de Andrade, Jakob L. Andersen, Maria Emília Telles Walter, Marcelo M. Brigido, Peter F. Stadler, Christoph Flamm:
Computational Simulations for Cyclizations Catalyzed by Plant Monoterpene Synthases. BSB 2020: 247-258 - [i40]Fabian Gärtner, Felix Kühnl, Carsten R. Seemann, Christian Höner zu Siederdissen, Peter F. Stadler:
Superbubbles as an Empirical Characteristic of Directed Networks. CoRR abs/2001.03409 (2020) - [i39]Marc Hellmuth, Carsten R. Seemann, Peter F. Stadler:
Generalized Fitch Graphs III: Symmetrized Fitch maps and Sets of Symmetric Binary Relations that are explained by Unrooted Edge-labeled Trees. CoRR abs/2001.05921 (2020) - [i38]Dulce I. Valdivia, Manuela Geiß, Maribel Hernández-Rosales, Peter F. Stadler, Marc Hellmuth:
Hierarchical and Modularly-Minimal Vertex Colorings. CoRR abs/2004.06340 (2020) - [i37]Tom Hartmann, Max Bannach, Martin Middendorf, Peter F. Stadler, Nicolas Wieseke, Marc Hellmuth:
Complete Edge-Colored Permutation Graphs. CoRR abs/2004.07118 (2020) - [i36]David Schaller, Manuela Geiß, Peter F. Stadler, Marc Hellmuth:
Complete Characterization of Incorrect Orthology Assignments in Best Match Graphs. CoRR abs/2006.02249 (2020) - [i35]David Schaller, Peter F. Stadler, Marc Hellmuth:
Complexity of Modification Problems for Best Match Graphs. CoRR abs/2006.16909 (2020) - [i34]David Schaller, Manuela Geiß, Marc Hellmuth, Peter F. Stadler:
Best Match Graphs with Binary Trees. CoRR abs/2011.00511 (2020) - [i33]David Schaller, Manuel Lafond, Peter F. Stadler, Nicolas Wieseke, Marc Hellmuth:
Indirect Identification of Horizontal Gene Transfer. CoRR abs/2012.08897 (2020)
2010 – 2019
- 2019
- [j183]Manoj Changat, Prasanth G. Narasimha-Shenoi, Peter F. Stadler:
Axiomatic characterization of transit functions of weak hierarchies. Art Discret. Appl. Math. 2(1): #P1.01 (2019) - [j182]Fabian Gärtner, Peter F. Stadler:
Direct Superbubble Detection. Algorithms 12(4): 81 (2019) - [j181]Daniel Wiegreffe, Daniel Alexander, Peter F. Stadler, Dirk Zeckzer:
RNApuzzler: efficient outerplanar drawing of RNA-secondary structures. Bioinform. 35(8): 1342-1349 (2019) - [j180]Ali M. Yazbeck, Peter F. Stadler, Kifah Tout, Jörg Fallmann:
Automatic curation of large comparative animal MicroRNA datasets. Bioinform. 35(22): 4553-4559 (2019) - [j179]Maria Beatriz Walter Costa, Christian Höner zu Siederdissen, Marko Dunjic, Peter F. Stadler, Katja Nowick:
SSS-test: a novel test for detecting positive selection on RNA secondary structure. BMC Bioinform. 20(1): 151:1-151:19 (2019) - [j178]Thomas Gatter, Peter F. Stadler:
Ryūtō: network-flow based transcriptome reconstruction. BMC Bioinform. 20(1): 190:1-190:14 (2019) - [j177]Joachim Ludwig, Christian Höner zu Siederdissen, Zishu Liu, Peter F. Stadler, Susann Müller:
flowEMMi: an automated model-based clustering tool for microbial cytometric data. BMC Bioinform. 20(1): 643 (2019) - [j176]Erhard Rahm, Wolfgang E. Nagel, Eric Peukert, René Jäkel, Fabian Gärtner, Peter F. Stadler, Daniel Wiegreffe, Dirk Zeckzer, Wolfgang Lehner:
Big Data Competence Center ScaDS Dresden/Leipzig: Overview and selected research activities. Datenbank-Spektrum 19(1): 5-16 (2019) - [j175]Jörg Fallmann, Pavankumar Videm, Andrea Bagnacani, Bérénice Batut, Maria A. Doyle, Tomas Klingström, Florian Eggenhofer, Peter F. Stadler, Rolf Backofen, Björn A. Grüning:
The RNA workbench 2.0: next generation RNA data analysis. Nucleic Acids Res. 47(Webserver-Issue): W511-W515 (2019) - [j174]Jakob L. Andersen, Christoph Flamm, Daniel Merkle, Peter F. Stadler:
Chemical Transformation Motifs - Modelling Pathways as Integer Hyperflows. IEEE ACM Trans. Comput. Biol. Bioinform. 16(2): 510-523 (2019) - [c56]Falco Kirchner, Nancy Retzlaff, Peter F. Stadler:
A General Framework for Exact Partially Local Alignments. BIOINFORMATICS 2019: 194-200 - [c55]Maria Waldl, Sebastian Will, Michael T. Wolfinger, Ivo L. Hofacker, Peter F. Stadler:
Bi-alignments as Models of Incongruent Evolution of RNA Sequence and Secondary Structure. CIBB 2019: 159-170 - [i32]Manuela Geiß, Marcos González, Alitzel López, Dulce I. Valdivia, Marc Hellmuth, Maribel Hernández-Rosales, Peter F. Stadler:
Best Match Graphs and Reconciliation of Gene Trees with Species Trees. CoRR abs/1904.12021 (2019) - [i31]Dulce I. Valdivia, Manuela Geiß, Marc Hellmuth, Maribel Hernández-Rosales, Peter F. Stadler:
Hierarchical Colorings of Cographs. CoRR abs/1906.10031 (2019) - [i30]Marc Hellmuth, Manuela Geiß, Peter F. Stadler:
Complexity of Modification Problems for Reciprocal Best Match Graphs. CoRR abs/1907.08865 (2019) - [i29]Marc Hellmuth, Carsten R. Seemann, Peter F. Stadler:
Generalized Fitch Relations II: Sets of Binary Relations that are explained by Edge-labeled Trees. CoRR abs/1911.07469 (2019) - 2018
- [j173]Marc Hellmuth, Yangjing Long, Manuela Geiß, Peter F. Stadler:
A short note on undirected Fitch graphs. Art Discret. Appl. Math. 1(1): #P1.08 (2018) - [j172]Nikolai Nøjgaard, Manuela Geiß, Daniel Merkle, Peter F. Stadler, Nicolas Wieseke, Marc Hellmuth:
Time-consistent reconciliation maps and forbidden time travel. Algorithms Mol. Biol. 13(1): 2:1-2:17 (2018) - [j171]Alexander Donath, Peter F. Stadler:
Split-inducing indels in phylogenomic analysis. Algorithms Mol. Biol. 13(1): 12:1-12:12 (2018) - [j170]Fabian Gärtner, Christian Höner zu Siederdissen, Lydia Müller, Peter F. Stadler:
Coordinate systems for supergenomes. Algorithms Mol. Biol. 13(1): 15:1-15:19 (2018) - [j169]Fabian Gärtner, Lydia Müller, Peter F. Stadler:
Superbubbles revisited. Algorithms Mol. Biol. 13(1): 16:1-16:17 (2018) - [j168]Manoj Changat, Ferdoos Hossein Nezhad, Peter F. Stadler:
Axiomatic characterization of transit functions of hierarchies. Ars Math. Contemp. 14(1): 117-128 (2018) - [j167]Alexandre Rossi Paschoal, Irma Lozada-Chávez, Douglas Silva Domingues, Peter F. Stadler:
ceRNAs in plants: computational approaches and associated challenges for target mimic research. Briefings Bioinform. 19(6): 1273-1289 (2018) - [j166]Anne Hoffmann, Jörg Fallmann, Elisa Vilardo, Mario Mörl, Peter F. Stadler, Fabian Amman:
Accurate mapping of tRNA reads. Bioinform. 34(7): 1116-1124 (2018) - [j165]