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Burrows Wheeler Transform on a Large Scale: Algorithms Implemented in Apache Spark

Author

Listed:
  • Ylenia Galluzzo

    (Department of Mathematics and Computer Science, University of Palermo, 90123 Palermo, Italy)

  • Raffaele Giancarlo

    (Department of Mathematics and Computer Science, University of Palermo, 90123 Palermo, Italy)

  • Mario Randazzo

    (Department of Mathematics and Computer Science, University of Palermo, 90123 Palermo, Italy)

  • Simona E. Rombo

    (Department of Mathematics and Computer Science, University of Palermo, 90123 Palermo, Italy)

Abstract

With the rapid growth of Next Generation Sequencing (NGS) technologies, large amounts of “omics” data are daily collected and need to be processed. Indexing and compressing large sequences datasets are some of the most important tasks in this context. Here, we propose a novel approach for the computation of Burrows Wheeler transform relying on Big Data technologies, i.e., Apache Spark and Hadoop. We implement three algorithms based on the MapReduce framework, distributing the index computation and not only the input dataset, differently than previous approaches from the literature. Experimental results performed on real datasets show that the proposed approach is promising.

Suggested Citation

  • Ylenia Galluzzo & Raffaele Giancarlo & Mario Randazzo & Simona E. Rombo, 2026. "Burrows Wheeler Transform on a Large Scale: Algorithms Implemented in Apache Spark," Data, MDPI, vol. 11(3), pages 1-14, March.
    • Handle: RePEc:gam:jdataj:v:11:y:2026:i:3:p:48-:d:1876146
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