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Fully Dynamic de Bruijn Graphs

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String Processing and Information Retrieval (SPIRE 2016)

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Abstract

We present a space- and time-efficient fully dynamic implementation of de Bruijn graphs, which can also support fixed-length jumbled pattern matching.

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Notes

  1. 1.

    An alternative definition, which our data structure can be made to handle but which we do not consider in this paper, has an edge from u to v whenever both nodes are in the graph.

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Acknowledgements

Many thanks to Rayan Chikhi and the anonymous reviewers for their comments.

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Correspondence to Travis Gagie .

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Belazzougui, D., Gagie, T., Mäkinen, V., Previtali, M. (2016). Fully Dynamic de Bruijn Graphs. In: Inenaga, S., Sadakane, K., Sakai, T. (eds) String Processing and Information Retrieval. SPIRE 2016. Lecture Notes in Computer Science(), vol 9954. Springer, Cham. https://doi.org/10.1007/978-3-319-46049-9_14

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  • DOI: https://doi.org/10.1007/978-3-319-46049-9_14

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