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bioRxiv · 10.1101/659664

Prefix Block-Interchanges on Binary and Ternary Strings

Rahman, M. K.·Rahman, M. S.
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Abstract

The genome rearrangement problem computes the minimum number of operations that are required to sort all elements of a permutation. A block-interchange operation exchanges two blocks of a permutation which are not necessarily adjacent and in a prefix block-interchange, one block is always the prefix of that permutation. In this paper, we focus on applying prefix block-interchanges on binary and ternary strings. We present upper bounds to group and sort a given binary/ternary string. We also provide upper bounds for a different version of the block-interchange operation which we refer to as the restricted prefix block-interchange. We observe that our obtained upper bound for restricted prefix block-interchange operations on binary strings is better than that of other genome rearrangement operations to group fully normalized binary strings. Consequently, we provide a linear-time algorithm to solve the problem of grouping binary normalized strings by restricted prefix block-interchanges. We also provide a polynomial time algorithm to group normalized ternary strings by prefix block-interchange operations. Finally, we provide a classification for ternary strings based on the required number of prefix block-interchange operations.

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Rahman, M. K., Rahman, M. S.. 2019-06-04. Prefix Block-Interchanges on Binary and Ternary Strings. https://doi.org/10.1101/659664

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