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Parameter-Free Ordered Partial Match Alignment with Hidden State Time Warping
This paper investigates an ordered partial matching alignment problem, in which the goal is to align two sequences in the presence of potentially non-matching regions. We propose a novel parameter-free dynamic programming alignment method called hidden state time warping that allows an alignment path to switch between two different planes: a "visible" plane corresponding to matching sections and a "hidden" plane corresponding to non-matching sections. By defining two distinct planes, we candoi:10.3390/app12083783 fatcat:hyfup6qverhphj42mx7yjii3dy