Hellmuth, M orcid.org/0000-0002-1620-5508, Knudsen, AS, Kotrbčík, M et al. (2 more authors) (2018) Linear time canonicalization and enumeration of non-Isomorphic 1-Face embeddings. In: 2018 Proceedings of the Twentieth Workshop on Algorithm Engineering and Experiments (ALENEX). Twentieth Workshop on Algorithm Engineering and Experiments (ALENEX), 07-08 Jan 2018, New Orleans, LA, USA. SIAM , pp. 154-168. ISBN 9781611975055
Abstract
Antiparallel strong traces (ASTs) are a type of walks in graphs which use every edge exactly twice. They correspond to 1-face embeddings in orientable surfaces and can be used to design self-assembling protein or DNA strands. Based on a novel canonical form invariant for ASTs, gap vector, we provide a linear-time isomorphism test for ASTs and thus, also for orientable 1-face embeddings of graphs. Using the canonical form, we develop an algorithm for enumerating all pairwise non-isomorphic 1-face embeddings of graphs. We compare our algorithm with an independent implementation of a recent algebraic approach (Bašić et al., MATCH Commun. Math. Comput. Chem. 78 (3), 2017) on large data sets. Our results yield the first large-scale enumeration of non-isomorphic embeddings and investigation of their properties.
Metadata
Item Type: | Proceedings Paper |
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Authors/Creators: |
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Copyright, Publisher and Additional Information: | © 2018 by SIAM. This is an author-produced version of a paper subsequently published in SIAM Proceedings. Uploaded in accordance with the publisher's self-archiving policy. |
Dates: |
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Institution: | The University of Leeds |
Academic Units: | The University of Leeds > Faculty of Engineering & Physical Sciences (Leeds) > School of Computing (Leeds) |
Depositing User: | Symplectic Publications |
Date Deposited: | 11 Aug 2020 14:14 |
Last Modified: | 11 Aug 2020 14:16 |
Status: | Published |
Publisher: | SIAM |
Identification Number: | 10.1137/1.9781611975055.14 |
Open Archives Initiative ID (OAI ID): | oai:eprints.whiterose.ac.uk:164238 |