MIOV: Reordering MOVI for even better locality

Peter Perešíni, Nathaniel K. Brown, Travis Gagie, Ben Langmead

Abstract

We consider how to reorder the rows of Nishimoto and Tabei's move structure such that we more often move from one row to the next in memory.

We consider how to reorder the rows of Nishimoto and Tabei's move structure such that we more often move from one row to the next in memory.

Paper Structure (2 equations, 1 figure)

This paper contains 2 equations, 1 figure.

Figure 1: A simplified BWT (left), move structure (center) for GATTACAT$, AGATACAT$, GATACAT$, GATTAGAT$, GATTAGATA$ and reordered move structure (right).