Efficient dynamic variation graphs.
Bioinform., 2021
Sequence tube maps: making graph genomes intuitive to commuters.
Bioinform., 2019
Superbubbles, Ultrabubbles, and Cacti.
J. Comput. Biol., 2018
Superbubbles, Ultrabubbles and Cacti.
Proceedings of the Research in Computational Molecular Biology, 2017
Representing and decomposing genomic structural variants as balanced integer flows on sequence graphs.
BMC Bioinform., 2016
Building a Pan-Genome Reference for a Population.
J. Comput. Biol., 2015
A unifying model of genome evolution under parsimony.
BMC Bioinform., 2014
Comparative assembly hubs: Web-accessible browsers for comparative genomics.
Bioinform., 2014
Building a Pangenome Reference for a Population.
Proceedings of the Research in Computational Molecular Biology, 2014
HAL: a hierarchical format for storing and analyzing multiple genome alignments.
Bioinform., 2013
An Approximation Algorithm for the Noah's Ark Problem with Random Feature Loss.
IEEE ACM Trans. Comput. Biol. Bioinform., 2011
A Probabilistic Model for Sequence Alignment with Context-Sensitive Indels.
J. Comput. Biol., 2011
Parallel catastrophe modelling on a Cell/BE.
Int. J. Parallel Emergent Distributed Syst., 2010
A Practical Algorithm for Estimation of the Maximum Likelihood Ancestral Reconstruction Error.
Proceedings of the Biocomputing 2010: Proceedings of the Pacific Symposium, 2010
Parallel catastrophe modelling on a cell processor.
Proceedings of the 2009 conference of the Centre for Advanced Studies on Collaborative Research, 2009
NAPX: A Polynomial Time Approximation Scheme for the Noah's Ark Problem.
Proceedings of the Algorithms in Bioinformatics, 8th International Workshop, 2008
Fast Parallel Maximum Likelihood-Based Protein Phylogeny.
Proceedings of the ISCA 18th International Conference on Parallel and Distributed Computing Systems, 2005