Vladimír Boža, Broňa Brejová, Tomáš Vinař. Improving Nanopore Reads Raw Signal Alignment. Technical Report arXiv:1705.01620, arXiv, 2017.
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We investigate usage of dynamic time warping (DTW) algorithm for aligning raw signal data from MinION sequencer. DTW is mostly using for fast alignment for selective sequencing to quickly determine whether a read comes from sequence of interest. We show that standard usage of DTW has low discriminative power mainly due to problem with accurate estimation of scaling parameters. We propose a simple variation of DTW algorithm, which does not suffer from scaling problems and has much higher discriminative power.
Last update: 08/02/2017